├── .gitattributes ├── utilities └── EDAM-bioimaging_lookup.sh ├── CODE_OF_CONDUCT.md ├── CONTRIBUTING.md ├── CITATION.bib ├── README.md ├── LICENSE └── releases ├── EDAM-bioimaging_alpha02.csv ├── EDAM-bioimaging_alpha02.tsv └── EDAM-bioimaging_alpha03.csv /.gitattributes: -------------------------------------------------------------------------------- 1 | # Set the following file types, so that line endings are never changed on checkout. The "binary" option does it. N.B. that here we need it also for tabular files, not only truly binary files! 2 | *.csv binary 3 | *.tsv binary 4 | *.xlsx binary 5 | *.png binary 6 | -------------------------------------------------------------------------------- /utilities/EDAM-bioimaging_lookup.sh: -------------------------------------------------------------------------------- 1 | #!/bin/bash 2 | # Script to count the number of references to EDAM in BISE 3 | # 4 | # Usage: EDAM-bioimaging_lookup BISE-dump.ttl EDAM-bioimaging.csv 5 | # 6 | #Example sources of data 7 | # wget https://github.com/NeuBIAS/bise-core-ontology/blob/master/data-dumps/2018-01-29/neubias-dump-20180129.ttl 8 | # wget http://edamontology.org/EDAM-bioimaging.csv 9 | 10 | # Last edit: Joakim Lindblad 2018-01-29 11 | 12 | 13 | #Choose the pattern you are interested in 14 | #pattern=http://edamontology.org/operation_ 15 | #pattern=http://edamontology.org/data_ 16 | #pattern=http://edamontology.org/topic_ 17 | 18 | pattern=http://edamontology.org/ 19 | 20 | #Assumed Header of EDAM csv file: Class ID,Preferred Label 21 | sed -n "s%.*\<\(${pattern}.*\)\>.*%^\1%p" "$1" | while read a; do grep "$a" "$2" | cut -d , -f 2; done | sort | uniq -c | sort -nr 22 | -------------------------------------------------------------------------------- /CODE_OF_CONDUCT.md: -------------------------------------------------------------------------------- 1 | # Community code of conduct 2 | 3 | This code of conduct outlines our expectations for the EDAM community. It is based loosely on the former Open Code of Conduct from the TODO Group. We are committed to providing a welcoming and productive community for all and expect our code of conduct to be honored. Our open source community strives to be: 4 | 5 | - **Considerate:** You depend upon the work of others who in turn depend on you. You're unlikely to be fully aware of the ramifications of your proposals or actions, and the constraints others work under. Before deciding or acting, talk to others and reach a common understanding of the consequences. 6 | - **Constructive:** We will not agree all the time. Where we disagree, try to understand why and maintain a positive attitude in seeking a resolution, bearing in mind we share a common goal. 7 | - **Supportive:** Support others in their work (you depend on them!), respecting the fact that we have different levels of experience and technical ability. 8 | - **Open-minded:** We have a wide range of backgrounds, skills and perspectives - this diversity is a strength. Be wary of ignoring or misunderstanding another viewpoint in the vindication of your own. 9 | - **Respectful:** Disagreement and differences do not excuse bad manners. Never allow frustration to turn into aggressive conduct or a personal attack. A happy atmosphere is a productive one: be nice, and keep a sense of humour. If you can't be nice, be quiet. 10 | - **Tolerant:** Treat people fairly and equally irrespective of their background and identity, including technical ability, experience, education, race, gender, nationality, age *etc*. 11 | - **Wise:** We are not infallible; we will make mistakes and change our viewpoints: admit and learn from mistakes and allow others to do the same. 12 | 13 | ## Conflict resolution 14 | If you experience or witness unacceptable behavior, or have any other concerns, please report it by contacting any member of the CoC committee, currently [Matúš Kalaš (apapronominal)](mailto:matus.kalas@uib.no) and [Hervé Ménager (he/him)](mailto:herve.menager@pasteur.fr). All reports will be handled with discretion. 15 | -------------------------------------------------------------------------------- /CONTRIBUTING.md: -------------------------------------------------------------------------------- 1 | # EDAM-bioimaging 2 | 3 | An ontology of bioimage informatics operations, types of data, data formats, and bioimaging topics 4 | 5 | Please see README.md for more details, including viewing and download. 6 | 7 | 8 | 9 | ## Contributing 10 | 11 | This is an open community project (transparent and participatory), and thus contributions are very welcome! 12 | 13 | The most accessible way of contributing is writing comments with suggestions or needs for clarification, and starting discussion threads. Multiple channels are avaialable: 14 | 15 | **Preferred:** 16 | * Add __comments__ to the [live development version of EDAM-bioimaging](https://webprotege.stanford.edu/#projects/2ce704bf-83ed-4d2e-985f-84c4841fac71/edit/Classes) at __WebProtégé__. Free registration at WebProtégé is required. Select a concept and "Start new thread" in the "Comments" widget|window (not "Comments" tab, stay in the "Classes" tab). Contribute to already open threads _ibid_ or in the "Comments" tab. 17 | 18 | **Other options:** 19 | * Submit or comment on an [__issue__](https://github.com/edamontology/edam-bioimaging/issues) at __GitHub__ 20 | * Create a __pull request__ to https://github.com/edamontology/edam-bioimaging 21 | * Add a proposal or comment to EDAM-bioimaging at the __NCBO BioPortal__ 22 | * to a selected concept in the ["Classes" tab](https://bioportal.bioontology.org/ontologies/EDAM-BIOIMAGING/?p=classes) by clicking the small "Notes" tab on the right (still within the big "Classes" tab) 23 | * on the general level in the ["Notes" tab](https://bioportal.bioontology.org/ontologies/EDAM-BIOIMAGING/?p=notes). You can include new concept proposals here. 24 | * Join the discussions at wg4-edam_ontology@irbbarcelona.org.glip.com (if member of, or invited to NeuBIAS on [Glip](https://app.glip.com/)). Mostly organisational stuff. 25 | * Add comments to the stable versions of EDAM-bioimaging at WebProtégé, such as the [last stable version](https://webprotege.stanford.edu/#projects/60fbe82b-bd58-41e2-825d-3801c071ee47/edit/Classes) and especially the frozen versions ([alpha06](https://webprotege.stanford.edu/#projects/c149e738-4437-456c-843c-eb5861a36854/edit/Classes), [alpha05](https://webprotege.stanford.edu/#projects/d9f9a5b2-d746-430a-a2cd-9aa745764079/edit/Classes), [alpha04](https://webprotege.stanford.edu/#projects/861eadbe-8e38-46fc-a59e-6d45a1b6f25e/edit/Classes), [alpha03](https://webprotege.stanford.edu/#projects/40a89525-b6d6-42f2-a4c1-88e7fb1c1f86/edit/Classes), [alpha02](https://webprotege.stanford.edu/#projects/f2cd721e-0f26-4b05-9ce2-ce20d4860442/edit/Classes)) for more persistent comments. Note that comments to the [live version](https://webprotege.stanford.edu/#projects/2ce704bf-83ed-4d2e-985f-84c4841fac71/edit/Classes) are handled with the highest priority. 26 | 27 | If you want to contribute in person, please join or organise a hackathon. Get in touch with wg4-edam_ontology@irbbarcelona.org.glip.com or matus.kalas@uib.no for planning. Usual hackathons for editing EDAM-bioimaging are the [NEUBIAS Taggathons](http://eubias.org/NEUBIAS/what-is-taggathon/). 28 | 29 | 30 | ## Editing 31 | 32 | At this momentary early stage of the development, the content of EDAM-bioimaging is developed collaboratively at http://webprotege.stanford.edu/#projects/2ce704bf-83ed-4d2e-985f-84c4841fac71/edit/Classes. After one dev cycle, these developments are commited in a batch to _git_. _Vice versa_, commits from _git_ are merged into WebProtégé. 33 | 34 | **_N.B._:** Due to this special setup, edit either: 35 | * in only _git_ or in only WebProtégé and merge afterwards 36 | * or if needed in parallel, edit properties and root concepts only in _git_ and other concepts only in WebProtégé. Merge afterwards. 37 | 38 | **_N.B._:** Be aware of how IDs of new concepts are assigned, and what it means for both **merging into _git_** and **[Comments](https://webprotege.stanford.edu/#projects/2ce704bf-83ed-4d2e-985f-84c4841fac71/edit/Comments) in WebProtégé**. See https://github.com/edamontology/edam-bioimaging/issues/7. 39 | -------------------------------------------------------------------------------- /CITATION.bib: -------------------------------------------------------------------------------- 1 | Before a full article is published, please cite the following when refering to EDAM-bioimaging in a scholarly publication: 2 | 3 | N.B.!! A NEW UPDATED POSTER WILL BE PUBLISHED VERY SOON. PLEASE LOOK FOR THE UPDATE. 4 | 5 | Matúš Kalaš, Laure Plantard, Nataša Sladoje, Joakim Lindblad, Moritz Alexander Kirschmann, Martin Jones, Anatole Chessel, Leandro Aluisio Scholz, Fabienne Rössler, Alexandre Dufour, John Bogovic, Chong Zhang, Dominic Waithe, Paula Sampaio, Lassi Paavolainen, David Hörl, Sebastian Munck, Ofra Golani, Josh Moore, Alban Gaignard, Florian Levet, participants in the NEUBIAS Taggathons, Perrine Paul-Gilloteaux, Jon Ison, the EDAM dev team, Kota Miura, Julien Colombelli, and welcoming new contributors (2019). EDAM-bioimaging: the ontology of bioimage informatics operations, topics, data, and formats (2019 update) [version 1; not peer reviewed]. F1000Research, 8(ELIXIR): 158. Poster. DOI: 10.7490/f1000research.1116432.1 Open Access 6 | 7 | @article{Kalas-etal2019b, 8 | author = {Mat\'{u}\v{s} Kala\v{s} and Laure Plantard and Nata\v{s}a Sladoje and Joakim Lindblad and Moritz Alexander Kirschmann and Martin Jones and Anatole Chessel and Leandro Aluisio Scholz and Fabienne R\"{o}ssler and Alexandre Dufour and John Bogovic and Chong Zhang Dominic Waithe and Paula Sampaio and Lassi Paavolainen and David H\"{o}rl and Sebastian Munck and Ofra Golani and Josh Moore and Alban Gaignardand and Florian Levet and {participants in the NEUBIAS Taggathons} and Perrine Paul-Gilloteaux and Jon Ison and {the EDAM dev team} and Kota Miura and Julien Colombelli and {welcoming new contributors}}, 9 | title = {{EDAM-bioimaging: the ontology of bioimage informatics operations, topics, data, and formats (2019 update) [version 1; not peer reviewed]}}, 10 | journal = {F1000Research}, 11 | year = {2019}, 12 | month = {Feb}, 13 | day = {6}, 14 | volume = {8}, 15 | number = {ELIXIR}, 16 | pages = {158}, 17 | note = {Poster}, 18 | access = {open}, 19 | doi = {10.7490/f1000research.1116432.1}, 20 | url = {https://doi.org/10.7490/f1000research.1116432.1}, 21 | eprint = {https://f1000research.com/posters/8-158} 22 | } 23 | 24 | 25 | 26 | 27 | The "mainline" EDAM ontology can be cited by: 28 | 29 | Jon Ison, Matúš Kalaš, Inge Jonassen, Dan Bolser, Mahmut Uludag, Hamish McWilliam, James Malone, Rodrigo Lopez, Steve Pettifer, and Peter Rice (2013). EDAM: an ontology of bioinformatics operations, types of data and identifiers, topics and formats. Bioinformatics, 29(10): 1325-1332. DOI: 10.1093/bioinformatics/btt113 PMID: 23479348 Open Access 30 | 31 | @article{Ison-etal2013, 32 | author = {Ison, Jon and Kala\v{s}, Mat\'{u}\v{s} and Jonassen, Inge and Bolser, Dan and Uludag, Mahmut and McWilliam, Hamish and Malone, James and Lopez, Rodrigo and Pettifer, Steve and Rice, Peter}, 33 | title = {{EDAM: An ontology of bioinformatics operations, types of data and identifiers, topics, and formats}}, 34 | journal = {Bioinformatics}, 35 | volume = {29}, 36 | number = {10}, 37 | pages = {1325-1332}, 38 | year = {2013}, 39 | month = {Mar}, 40 | day = {11}, 41 | doi = {10.1093/bioinformatics/btt113}, 42 | access = {open}, 43 | pmid = {23479348}, 44 | pmcid = {PMC3654706}, 45 | URL = {https://doi.org/10.1093/bioinformatics/btt113}, 46 | eprint = {https://academic.oup.com/bioinformatics/article/29/10/1325/255660}, 47 | PDF = {https://academic.oup.com/bioinformatics/article-pdf/29/10/1325/710075/btt113.pdf} 48 | } 49 | 50 | 51 | 52 | 53 | EDAM-bioimaging releases are citable with DOIs too, for cases when that is needed. 10.5281/zenodo.1149730 represents all releases and resolves to the DOI of the last stable release. For the DOI of a particular release of EDAM-bioimaging, please see /releases. 54 | 55 | @misc{Kalas-etal2016-2019, 56 | author = {Mat\'{u}\v{s} Kala\v{s} and Laure Plantard and Nata\v{s}a Sladoje and Joakim Lindblad and Moritz Alexander Kirschmann and Martin Jones and Leandro Aluisio Scholz and Anatole Chessel and Jon Ison and contributors}, 57 | title = {edamontology/edam-bioimaging}, 58 | year = {2016-2019}, 59 | note = {Software (all versions)}, 60 | howpublished = {\url{https://github.com/edamontology/edam-bioimaging}}, 61 | doi = {10.5281/zenodo.1149730}, 62 | access = {open}, 63 | URL = {https://doi.org/10.5281/zenodo.1149730}, 64 | eprint = {https://zenodo.org/record/1149730} 65 | } 66 | 67 | @misc{Kalas-etal2018a, 68 | author = {Mat\'{u}\v{s} Kala\v{s} and Contributors from NEUBIAS Taggathons}, 69 | title = {edamontology/edam-bioimaging: alpha03}, 70 | year = {2018}, 71 | month = {Jan}, 72 | day = {16}, 73 | note = {Software version}, 74 | howpublished = {\url{https://github.com/edamontology/edam-bioimaging/releases/tag/alpha03}}, 75 | doi = {10.5281/zenodo.1149731}, 76 | access = {open}, 77 | URL = {https://doi.org/10.5281/zenodo.1149731}, 78 | eprint = {https://zenodo.org/record/1149731} 79 | } 80 | 81 | @misc{Kalas-etal2018c, 82 | author = {Mat\'{u}\v{s} Kala\v{s} and Laure Plantard and Nata\v{s}a Sladoje and Joakim Lindblad and Moritz Alexander Kirschmann and Martin Jones and Leandro Aluisio Scholz and Anatole Chessel and Jon Ison and contributors}, 83 | title = {edamontology/edam-bioimaging: alpha04}, 84 | year = {2018}, 85 | month = {Oct}, 86 | day = {17}, 87 | note = {Software version}, 88 | howpublished = {\url{https://github.com/edamontology/edam-bioimaging/releases/tag/alpha04}}, 89 | doi = {10.5281/zenodo.2556019}, 90 | access = {open}, 91 | URL = {https://doi.org/10.5281/zenodo.2556019}, 92 | eprint = {https://zenodo.org/record/2556019} 93 | } 94 | 95 | @misc{Kalas-etal2019a, 96 | author = {Mat\'{u}\v{s} Kala\v{s} and Nata\v{s}a Sladoje and Laure Plantard and Martin Jones and Leandro Aluisio Scholz and Joakim Lindblad and contributors}, 97 | title = {edamontology/edam-bioimaging: alpha05}, 98 | year = {2019}, 99 | month = {Feb}, 100 | day = {5}, 101 | note = {Software version}, 102 | howpublished = {\url{https://github.com/edamontology/edam-bioimaging/releases/tag/alpha05}}, 103 | doi = {10.5281/zenodo.2557012}, 104 | access = {open}, 105 | URL = {https://doi.org/10.5281/zenodo.2557012}, 106 | eprint = {https://zenodo.org/record/2557012} 107 | } 108 | 109 | 110 | 111 | Older poster: 112 | 113 | Matúš Kalaš, Laure Plantard, Moritz Alexander Kirschmann, Joakim Lindblad, Anatole Chessel, Nataša Sladoje-Matić, Leandro A. Scholz, Chong Zhang, Fabienne Rössler, Alexandre Dufour, John A. Bogovic, Martin Jones, Josh Moore, Alban Gaignard, Lassi Paavolainen, David Hörl, Ofra Golani, Participants in the NEUBIAS Taggathons, Perrine Paul-Gilloteaux, the EDAM dev team, Kota Miura, Julien Colombelli, and welcoming contributors (2018). EDAM-bioimaging: the ontology of bioimage informatics operations, topics, data, and formats [version 1; not peer reviewed]. F1000Research, 7(ELIXIR): 180. Poster. DOI: 10.7490/f1000research.1115257.1 Open Access 114 | 115 | @article{Kalas-etal2018b, 116 | author = {Mat\'{u}\v{s} Kala\v{s} and Laure Plantard and Moritz Alexander Kirschmann and Joakim Lindblad and Anatole Chessel and Nata\v{s}a Sladoje-Mati\'{c} and Leandro A. Scholz and Chong Zhang and Fabienne R\"{o}ssler and Alexandre Dufour and John A. Bogovic and Martin Jones and Josh Moore and Alban Gaignard and Lassi Paavolainen and David H\"{o}rl and Ofra Golani and {Participants in the NEUBIAS Taggathons} and Perrine Paul-Gilloteaux and {the EDAM dev team} and Kota Miura and Julien Colombelli and {welcoming contributors}}, 117 | title = {{EDAM-bioimaging: the ontology of bioimage informatics operations, topics, data, and formats [version 1; not peer reviewed]}}, 118 | journal = {F1000Research}, 119 | year = {2018}, 120 | month = {Feb}, 121 | day = {12}, 122 | volume = {7}, 123 | number = {ELIXIR}, 124 | pages = {180}, 125 | note = {Poster}, 126 | access = {open}, 127 | doi = {10.7490/f1000research.1115257.1}, 128 | url = {https://doi.org/10.7490/f1000research.1115257.1}, 129 | eprint = {https://f1000research.com/posters/7-180} 130 | } 131 | -------------------------------------------------------------------------------- /README.md: -------------------------------------------------------------------------------- 1 | DOI representing all stable versions, resolving to the latest: [![10.5281/zenodo.1149730](https://zenodo.org/badge/DOI/10.5281/zenodo.1149730.svg)](https://doi.org/10.5281/zenodo.1149730) 2 | 3 | DOI of the latest stable EDAM Bioimaging version _alpha06_: [![10.5281/zenodo.3695725](https://zenodo.org/badge/DOI/10.5281/zenodo.3695725.svg)](https://doi.org/10.5281/zenodo.3695725) 4 | 5 | Poster: [EDAM Bioimaging 2024](https://edamontology.org/poster-bioimaging.pdf) (older, citable poster is at [![10.7490/f1000research.1117826.1](https://zenodo.org/badge/DOI/10.7490/f1000research.1117826.1.svg)](https://doi.org/10.7490/f1000research.1117826.1)) 6 | 7 | Twitter: [@edamontology](http://twitter.com/edamontology) ([follow](https://twitter.com/intent/follow?original_referer=https%3A%2F%2Fgithub.com%2Fedamontology%2Fedam-bioimaging®ion=follow_link&screen_name=edamontology&tw_p=followbutton); currently not attended) 8 | 9 | [![Project Status: WIP – Initial development is in progress, but there has not yet been a stable, full-fledged reliable release.](https://www.repostatus.org/badges/latest/wip.svg)](https://www.repostatus.org/#wip) 10 | 11 | 12 | # EDAM Bioimaging 13 | 14 | An ontology of bioimage informatics operations, types of data, data formats, and bioimaging topics 15 | 16 | 17 | EDAM Bioimaging is an extension to the [EDAM ontology](https://github.com/edamontology/edamontology) (http://edamontology.org) for image analysis, bioimaging, AI/ML, bioimage informatics, mass spectrometry, and cytometry. It is being developed in on open between the [ELIXIR](http://www.elixir-europe.org) Research Infrastructure consortium, and the bioimaging community (especially supporting were [NEUBIAS](http://eubias.org/NEUBIAS) and [COMULIS](http://www.comulis.eu) COST Actions CA15124, CA17121, funded by the Horizon 2020 Framework Programme of the European Union), in close contact with the [Euro-BioImaging](http://www.eurobioimaging.eu) Research Infrastructure consortium, the [Global BioImaging](https://globalbioimaging.org/) network, and [QUAREP-LiMi](https://quarep.org), the global grassroots organisation for standardisation in light microscopy. 18 | 19 | 20 | ## Viewing 21 | 22 | * __Last stable version__ (now _alpha06_) at the __[NCBO BioPortal](https://bioportal.bioontology.org/ontologies/EDAM-BIOIMAGING?p=classes)__ 23 | 24 | * __All versions__ at __WebProtégé__. Free registration at WebProtégé is required. 25 | 26 | * __[Live development version](https://webprotege.stanford.edu/#projects/2ce704bf-83ed-4d2e-985f-84c4841fac71/edit/Classes)__ (now *alpha07_dev*) 27 | 28 | * __[Last stable version](https://webprotege.stanford.edu/#projects/60fbe82b-bd58-41e2-825d-3801c071ee47/edit/Classes)__ (now _alpha06_) 29 | 30 | * __[Frozen version *alpha06*](https://webprotege.stanford.edu/#projects/c149e738-4437-456c-843c-eb5861a36854/edit/Classes)__ 31 | 32 | * [Frozen version *alpha05*](https://webprotege.stanford.edu/#projects/d9f9a5b2-d746-430a-a2cd-9aa745764079/edit/Classes) 33 | 34 | * [Frozen version *alpha04*](https://webprotege.stanford.edu/#projects/861eadbe-8e38-46fc-a59e-6d45a1b6f25e/edit/Classes) 35 | 36 | * [Frozen version *alpha03*](https://webprotege.stanford.edu/#projects/40a89525-b6d6-42f2-a4c1-88e7fb1c1f86/edit/Classes) 37 | 38 | * [Frozen version *alpha02*](https://webprotege.stanford.edu/#projects/f2cd721e-0f26-4b05-9ce2-ce20d4860442/edit/Classes) 39 | 40 | 41 | ## Visualization 42 | 43 | * In __WebVOWL__: https://service.tib.eu/webvowl/#iri=https://edamontology.org/EDAM-bioimaging.owl 44 | 45 | 46 | ## Download 47 | 48 | __Always the last stable version:__ 49 | 50 | * In __OWL__ format from http://edamontology.org/EDAM-bioimaging.owl 51 | 52 | * In __TSV__ format from http://edamontology.org/EDAM-bioimaging.tsv 53 | 54 | * In __CSV__ format from http://edamontology.org/EDAM-bioimaging.csv 55 | 56 | 57 | __Other versions__, _e.g._ the current _alpha06_: 58 | 59 | * In __OWL__ format from http://edamontology.org/EDAM-bioimaging_alpha06.owl 60 | 61 | * In __TSV__ format from http://edamontology.org/EDAM-bioimaging_alpha06.tsv 62 | 63 | * In __CSV__ format from http://edamontology.org/EDAM-bioimaging_alpha06.csv 64 | 65 | 66 | 67 | ## Contributing 68 | 69 | This is an open community project (transparent and participatory), and thus contributions are very welcome! 70 | 71 | The most accessible way of contributing is writing comments with suggestions or needs for clarification, and starting discussion threads. Multiple channels are avaialable: 72 | 73 | **Preferred:** 74 | * Add __comments__ to the [live development version of EDAM-bioimaging](https://webprotege.stanford.edu/#projects/2ce704bf-83ed-4d2e-985f-84c4841fac71/edit/Classes) at __WebProtégé__. Free registration at WebProtégé is required. Select a concept and "Start new thread" in the "Comments" widget|window (not "Comments" tab, stay in the "Classes" tab). Contribute to already open threads _ibid_ or in the "Comments" tab. 75 | 76 | **Other options:** 77 | * Submit or comment on an [__issue__](https://github.com/edamontology/edam-bioimaging/issues) at __GitHub__ 78 | * Create a __pull request__ to https://github.com/edamontology/edam-bioimaging 79 | * Add a proposal or comment to EDAM-bioimaging at the __NCBO BioPortal__ 80 | * to a selected concept in the ["Classes" tab](https://bioportal.bioontology.org/ontologies/EDAM-BIOIMAGING/?p=classes) by clicking the small "Notes" tab on the right (still within the big "Classes" tab) 81 | * on the general level in the ["Notes" tab](https://bioportal.bioontology.org/ontologies/EDAM-BIOIMAGING/?p=notes). You can include new concept proposals here. 82 | * Join the discussions at wg4-edam_ontology@irbbarcelona.org.glip.com (if member of, or invited to NeuBIAS on [Glip](https://app.glip.com/)). Mostly organisational stuff. 83 | * Add comments to the stable versions of EDAM-bioimaging at WebProtégé, such as the [last stable version](https://webprotege.stanford.edu/#projects/60fbe82b-bd58-41e2-825d-3801c071ee47/edit/Classes) and especially the frozen versions ([alpha06](https://webprotege.stanford.edu/#projects/c149e738-4437-456c-843c-eb5861a36854/edit/Classes), [alpha05](https://webprotege.stanford.edu/#projects/d9f9a5b2-d746-430a-a2cd-9aa745764079/edit/Classes), [alpha04](https://webprotege.stanford.edu/#projects/861eadbe-8e38-46fc-a59e-6d45a1b6f25e/edit/Classes), [alpha03](https://webprotege.stanford.edu/#projects/40a89525-b6d6-42f2-a4c1-88e7fb1c1f86/edit/Classes), [alpha02](https://webprotege.stanford.edu/#projects/f2cd721e-0f26-4b05-9ce2-ce20d4860442/edit/Classes)) for more persistent comments. Note that comments to the [live version](https://webprotege.stanford.edu/#projects/2ce704bf-83ed-4d2e-985f-84c4841fac71/edit/Classes) are handled with the highest priority. 84 | 85 | If you want to contribute in person, please join or organise a hackathon. Get in touch with wg4-edam_ontology@irbbarcelona.org.glip.com or matus.kalas@uib.no for planning. Usual hackathons for editing EDAM-bioimaging are the [NEUBIAS Taggathons](http://eubias.org/NEUBIAS/what-is-taggathon/). 86 | 87 | 88 | ## Editing 89 | 90 | At this momentary early stage of the development, the content of EDAM-bioimaging is developed collaboratively at http://webprotege.stanford.edu/#projects/2ce704bf-83ed-4d2e-985f-84c4841fac71/edit/Classes. After one dev cycle, these developments are commited in a batch to _git_. _Vice versa_, commits from _git_ are merged into WebProtégé. 91 | 92 | **_N.B._:** Due to this special setup, edit either: 93 | * in only _git_ or in only WebProtégé and merge afterwards 94 | * or if needed in parallel, edit properties and root concepts only in _git_ and other concepts only in WebProtégé. Merge afterwards. 95 | 96 | **_N.B._:** Be aware of how IDs of new concepts are assigned, and what it means for both **merging into _git_** and **[Comments](https://webprotege.stanford.edu/#projects/2ce704bf-83ed-4d2e-985f-84c4841fac71/edit/Comments) in WebProtégé**. See https://github.com/edamontology/edam-bioimaging/issues/7. 97 | 98 | 99 | ## Citing 100 | 101 | (Download [BibTeX](https://raw.githubusercontent.com/edamontology/edam-bioimaging/main/CITATION.bib)) 102 | 103 | Before a full article is published, please cite the following when refering to EDAM Bioimaging in a scholarly publication: 104 | 105 | * Matúš Kalaš, Laure Plantard, Joakim Lindblad, Martin Jones, Nataša Sladoje, Moritz A. Kirschmann, Anatole Chessel, Leandro Scholz, Fabienne Rössler, Laura Nicolás Sáenz, Estibaliz Gómez de Mariscal, John Bogovic, Alexandre Dufour, Xavier Heiligenstein, Dominic Waithe, Marie-Charlotte Domart, Matthia Karreman, Raf Van de Plas, Robert Haase, David Hörl, Lassi Paavolainen, Ivana Vrhovac Madunić, Dean Karaica, Arrate Muñoz-Barrutia, Paula Sampaio, Daniel Sage, Sebastian Munck, Ofra Golani, Josh Moore, Florian Levet, Jon Ison, Alban Gaignard, Hervé Ménager, Chong Zhang, Kota Miura, Julien Colombelli, and Perrine Paul-Gilloteaux. We are [welcoming new contributors!](https://github.com/edamontology/edam-bioimaging#contributing) **(2020)**. [EDAM-bioimaging: the ontology of bioimage informatics operations, topics, data, and formats (update 2020) [version 1; not peer reviewed]](https://f1000research.com/posters/9-162). _F1000Research_, **9**(ELIXIR): 162. Poster. [![10.7490/10.7490/f1000research.1117826.1](https://zenodo.org/badge/DOI/10.7490/f1000research.1117826.1.svg)](https://doi.org/10.7490/f1000research.1117826.1) _Open Access_ 106 | 107 | The "mainline" EDAM ontology can be cited by: 108 | 109 | * Jon Ison, Matúš Kalaš, Inge Jonassen, Dan Bolser, Mahmut Uludag, Hamish McWilliam, James Malone, Rodrigo Lopez, Steve Pettifer, and Peter Rice **(2013)**. [EDAM: an ontology of bioinformatics operations, types of data and identifiers, topics and formats](http://bioinformatics.oxfordjournals.org/content/29/10/1325.full). _Bioinformatics_, **29**(10): 1325-1332. 110 | [![10.1093/bioinformatics/btt113](https://zenodo.org/badge/DOI/10.1093/bioinformatics/btt113.svg)](https://doi.org/10.1093/bioinformatics/btt113) PMID: [23479348](http://www.ncbi.nlm.nih.gov/pubmed/23479348) _Open Access_ 111 | 112 | EDAM Bioimaging releases are citable with DOIs too, for cases when that is needed. [![10.5281/zenodo.1149730](https://zenodo.org/badge/DOI/10.5281/zenodo.1149730.svg)](https://doi.org/10.5281/zenodo.1149730) represents all releases and resolves to the DOI of the last stable release. For the DOI of a particular release of EDAM Bioimaging, please see [/releases](https://github.com/edamontology/edam-bioimaging/tree/main/releases). 113 | -------------------------------------------------------------------------------- /LICENSE: -------------------------------------------------------------------------------- 1 | Attribution-ShareAlike 4.0 International 2 | 3 | ======================================================================= 4 | 5 | Creative Commons Corporation ("Creative Commons") is not a law firm and 6 | does not provide legal services or legal advice. Distribution of 7 | Creative Commons public licenses does not create a lawyer-client or 8 | other relationship. Creative Commons makes its licenses and related 9 | information available on an "as-is" basis. Creative Commons gives no 10 | warranties regarding its licenses, any material licensed under their 11 | terms and conditions, or any related information. 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For 424 | the avoidance of doubt, this paragraph does not form part of the 425 | public licenses. 426 | 427 | Creative Commons may be contacted at creativecommons.org. 428 | -------------------------------------------------------------------------------- /releases/EDAM-bioimaging_alpha02.csv: -------------------------------------------------------------------------------- 1 | Class ID,Preferred Label,Synonyms,Definitions,Obsolete,CUI,Semantic Types,Parents,Citation,Created in,Documentation,Example,File extension,has format,has function,has identifier,has input,has output,has 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format of,is function of,is identifier of,is input of,is output of,is topic of,isdebtag,Media type,Obsolete since,Regular expression 2 | http://edamontology.org/topic__R8XUtD89JCyeUaaVebe9Mkw,In-vivo imaging,,,false,,,http://edamontology.org/topic__RL4rPCXlIu9uzNrGcbcSNp,,,,,,,,,,,,topic__R8XUtD89JCyeUaaVebe9Mkw,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 3 | http://edamontology.org/operation_Closing,Closing,,,false,,,http://edamontology.org/operation_Morphological_operations,,,,,,,,,,,,operation_Closing,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 4 | http://edamontology.org/topic__RBNfUSYBOKUapWrsyPMMTkw,Cryo scanning electron microscopy,Cryo SEM,,false,,,http://edamontology.org/topic__RBZsLMTdyuEDtVe2fge61l0,,,,,,,,,,,,topic__RBNfUSYBOKUapWrsyPMMTkw,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Cryo SEM,,,,,,,,,,,,,,,,,,, 5 | http://edamontology.org/topic_3385,Light microscopy,Fluorescence recovery after 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tracking,,,false,,,http://edamontology.org/operation_Image_tracking,,,,,,,,,,,,operation__RDsrmC9l0bZw9kGJzGMCyY8,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 9 | http://edamontology.org/operation_Shape_features,Shape features,,,false,,,http://edamontology.org/operation_Feature_extraction,,,,,,,,,,,,operation_Shape_features,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 10 | http://edamontology.org/operation_Particle_extraction,Particle extraction,,,false,,,http://edamontology.org/operation_Feature_extraction,,,,,,,,,,,,operation_Particle_extraction,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 11 | http://edamontology.org/data_Image_geometry,Image data properties,,,false,,,http://edamontology.org/data__R80aNLt4YY02ByptWQa2yrY,,,,,,,,,,,,data_Image_geometry,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 12 | http://edamontology.org/operation__RBYLqCqN4rP7Jy5m5mxpTeM,Frequency analysis,Fast Fourier transform|FFT|Wavelet transform,Add Wikipedia links,false,,,http://edamontology.org/operation_Image_processing|http://edamontology.org/operation__RCeFsUcF68YcEyw6iWxw2le,,,,,,,,,,,,operation__RBYLqCqN4rP7Jy5m5mxpTeM,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Fast Fourier transform|FFT|Wavelet transform,,,,,,,,,,,,,,,,, 13 | http://edamontology.org/data__RDr5D5pOVdnB8hASL1LG8HH,Image radiometric noise,,,false,,,http://edamontology.org/data__RCjZhkavxxifpvdNiasVVCc,,,,,,,,,,,,data__RDr5D5pOVdnB8hASL1LG8HH,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 14 | http://edamontology.org/operation_Dilation,Dilatation,,,false,,,http://edamontology.org/operation_Morphological_operations,,,,,,,,,,,,operation_Dilation,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 15 | http://edamontology.org/topic__RMCSMqSNvOTurvW2FV8tjN,Stimulated Emission Depletion microscopy,,,false,,,http://edamontology.org/topic_Super-resolution_microscopy,,,,,,,,,,,,topic__RMCSMqSNvOTurvW2FV8tjN,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 16 | http://edamontology.org/topic__R9PtYz3fOHhRsnKnQzFIXff,Critical-point drying,,,false,,,http://edamontology.org/topic__ReQzVVVh0IPyN0c1V5wQVO,,,,,,,,,,,,topic__R9PtYz3fOHhRsnKnQzFIXff,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 17 | http://edamontology.org/topic_0611,Electron microscopy,,,false,,,http://edamontology.org/topic_Microscopy,,,,,,,,,,,,topic_0611,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 18 | http://edamontology.org/operation_Image_classification,Image classification,Object classification|Classification|Image clustering,,false,,,http://edamontology.org/operation_2990|http://edamontology.org/operation_3443,,,,,,,,,,,,operation_Image_classification,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Object classification|Classification,Image clustering,,,,,,,,,,,,,,,,,, 19 | http://edamontology.org/operation_Rotation,Rotation,,,false,,,http://edamontology.org/operation__R8ANfLkuHu47r739AkhxrId,,,,,,,,,,,,operation_Rotation,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 20 | http://edamontology.org/operation_Adaptative_thresholding,Adaptative thresholding,,,false,,,http://edamontology.org/operation_Image_segmentation,,,,,,,,,,,,operation_Adaptative_thresholding,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 21 | http://edamontology.org/topic__RXLeVr0cHSXzTSRyO5zwZD,Scanning transmission electron microscopy,,,false,,,http://edamontology.org/topic__R7LElbFkBgKS401YKsVtNck,,,,,,,,,,,,topic__RXLeVr0cHSXzTSRyO5zwZD,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 22 | http://edamontology.org/operation_Erosion,Erosion,,,false,,,http://edamontology.org/operation_Morphological_operations,,,,,,,,,,,,operation_Erosion,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 23 | http://edamontology.org/operation__RDlueIjODveP3FyOknVAqo5,Detector bias correction,Camera bias correction,additive,false,,,http://edamontology.org/operation__R7MFwdgojfmkZ07yWbdcda0,,,,,,,,,,,,operation__RDlueIjODveP3FyOknVAqo5,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Camera bias correction,,,,,,,,,,,,,,,,,, 24 | http://edamontology.org/topic_Fluorescent_microscopy,Fluorescent microscopy,,,false,,,http://edamontology.org/topic_3385,,,,,,,,,,,,topic_Fluorescent_microscopy,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 25 | http://edamontology.org/operation_Image_tracking,Object tracking,Tracking,,false,,,http://edamontology.org/operation_3443,,,,,,,,,,,,operation_Image_tracking,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Tracking,,,,,,,,,,,,,,,,,,, 26 | http://edamontology.org/topic__R96toeNl9iMp8oqv9augU84,In-silico reconstruction,Morphological reconstruction|3D reconstruction,,false,,,http://edamontology.org/topic_0003,,,,,,,,,,,,topic__R96toeNl9iMp8oqv9augU84,,,,,,,,,,,,,,,,,,,,,,,,,,,,Morphological reconstruction|3D reconstruction,,,,,,,,,,,,,,,,,,,,,, 27 | http://edamontology.org/operation_Image_smoothing,Smoothing,Gaussian filtering|Gaussian blurring|Gaussian smoothing|Blurring,,false,,,http://edamontology.org/operation_Image_enhancement,,,,,,,,,,,,operation_Image_smoothing,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Gaussian filtering|Gaussian blurring|Gaussian smoothing,Blurring,,,,,,,,,,,,,,,,, 28 | http://edamontology.org/operation_Neuron_image_analysis,Neuron image analysis,,,false,,,http://edamontology.org/operation_3443,,,,,,,,,,,,operation_Neuron_image_analysis,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 29 | http://edamontology.org/topic__RNFOzq5E0ZVBh5Euhn06rn,DIC microscopy,,,false,,,http://edamontology.org/topic__R9P5gEAm1wic4R2PcZ7ZpPA,,,,,,,,,,,,topic__RNFOzq5E0ZVBh5Euhn06rn,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 30 | http://edamontology.org/operation__RCPVGO34XrwrJasQ5yWBg9k,Deformable registration,Elastic registration,,false,,,http://edamontology.org/operation_Image_registration,,,,,,,,,,,,operation__RCPVGO34XrwrJasQ5yWBg9k,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Elastic registration,,,,,,,,,,,,,,,,,, 31 | http://edamontology.org/data__RCDMkOl5gzD23OFsPf6vr4a,Spectral properties,,,false,,,http://edamontology.org/data__R80aNLt4YY02ByptWQa2yrY,,,,,,,,,,,,data__RCDMkOl5gzD23OFsPf6vr4a,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 32 | http://edamontology.org/operation__R7qn3VpJyCAPGqdW6ia3h2d,Spectral unmixing,Color deconvolution,,false,,,http://edamontology.org/operation__R7MFwdgojfmkZ07yWbdcda0,,,,,,,,,,,,operation__R7qn3VpJyCAPGqdW6ia3h2d,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Color deconvolution,,,,,,,,,,,,,,,,, 33 | http://edamontology.org/data__R80aNLt4YY02ByptWQa2yrY,Image characteristics,Image metadata,,false,,,http://edamontology.org/data_0006,,,,,,,,,,,,data__R80aNLt4YY02ByptWQa2yrY,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Image metadata,,,,,,,,,,,,,,,,,, 34 | http://edamontology.org/operation_Image_reconstruction,Image reconstruction,Image restoration,"Image enhancement moves further away from the ""reality"", as opposed to Image reconstruction that moves closer to the ""reality"".",false,,,http://edamontology.org/operation_Image_processing|http://edamontology.org/operation__RDFFD5jBfUw74a3vJeBAGB1,,,,,,,,,,,,operation_Image_reconstruction,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Image restoration,,,,,,,,,,,,,,,,,, 35 | http://edamontology.org/topic__RbM6PZFI9i5lG4gzAySn0c,Freeze fracturing,,,false,,,http://edamontology.org/topic__ReQzVVVh0IPyN0c1V5wQVO,,,,,,,,,,,,topic__RbM6PZFI9i5lG4gzAySn0c,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 36 | http://edamontology.org/topic__RBkRgSi7js0c70kjiPgYTgR,Single-photon emission computed tomography,SPECT,,false,,,http://edamontology.org/topic_3452,,,,,,,,,,,,topic__RBkRgSi7js0c70kjiPgYTgR,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,SPECT,,,,,,,,,,,,,,,,, 37 | http://edamontology.org/operation_Spot_extraction,Spot extraction,Spot detection,,false,,,http://edamontology.org/operation_Feature_extraction,,,,,,,,,,,,operation_Spot_extraction,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Spot detection,,,,,,,,,,,,,,,,,,, 38 | http://edamontology.org/operation_Warping,Warping,,,false,,,http://edamontology.org/operation_Geometrical_transform,,,,,,,,,,,,operation_Warping,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 39 | http://edamontology.org/operation__R1NVO6hpWWcs99UiEFiOfK,Tomography reconstruction,,,false,,,http://edamontology.org/operation_Image_reconstruction,,,,,,,,,,,,operation__R1NVO6hpWWcs99UiEFiOfK,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 40 | http://edamontology.org/data__R7Vdp7H5PzNJiqA7JaEEPrJ,Image radiometric noise characteristics,,,false,,,http://edamontology.org/data__RDr5D5pOVdnB8hASL1LG8HH,,,,,,,,,,,,data__R7Vdp7H5PzNJiqA7JaEEPrJ,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 41 | http://edamontology.org/operation__RBPObKBKIMwjdLygBOlvojW,Selective plane illumination microscopy reconstruction,,,false,,,http://edamontology.org/operation_Image_reconstruction,,,,,,,,,,,,operation__RBPObKBKIMwjdLygBOlvojW,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 42 | http://edamontology.org/operation_Skeletonization,Skeletonisation,Medial axis,,false,,,http://edamontology.org/operation_Morphological_operations,,,,,,,,,,,,operation_Skeletonization,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Medial axis,,,,,,,,,,,,,,,,,, 43 | http://edamontology.org/operation_Image_visualisation,Image visualisation,Rendering|Lookup table,"Visualisation vs Plotting vs Image generation 44 | Should these be merged? 45 | Which of these should be the top concept, and which sub-concepts, and which narrow synonyms?",false,,,http://edamontology.org/operation_0337,,,,,,,,,,,,operation_Image_visualisation,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Rendering,Lookup table,,,,,,,,,,,,,,,,,, 46 | http://edamontology.org/data__RCOwaNKaK3gFcUhkjBq7aor,Image data,Image,"So far consensus: Primary term Image data, exact synonym Image, meaning image or a set of (related) images (forming e.g. a stack or a time-lapse). No synonyms for stacks and ""movies"", these should be specialised concepts.",false,,,http://edamontology.org/data_0006,,,,,,,,,,,,data__RCOwaNKaK3gFcUhkjBq7aor,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Image,,,,,,,,,,,,,,,,,,, 47 | http://edamontology.org/topic__RL4rPCXlIu9uzNrGcbcSNp,Live sample imaging,,,false,,,http://edamontology.org/topic_3382,,,,,,,,,,,,topic__RL4rPCXlIu9uzNrGcbcSNp,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 48 | http://edamontology.org/operation_3096,Editing,,,false,,,http://edamontology.org/operation_2409,,,,,,,,,,,,operation_3096,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 49 | http://edamontology.org/operation_0337,Visualisation,Plotting,,false,,,http://edamontology.org/operation_0004,,,,,,,,,,,,operation_0337,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Plotting,,,,,,,,,,,,,,,,,, 50 | http://edamontology.org/operation_Image_thresholding,Image thresholding,Thresholding|Clustering-based image thresholding,,false,,,http://edamontology.org/operation_Image_segmentation,,,,,,,,,,,,operation_Image_thresholding,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Thresholding,Clustering-based image thresholding,,,,,,,,,,,,,,,,,, 51 | http://edamontology.org/topic__RBsSZve5PnQFO3scMDWo9f0,Area-capturing microscopy,,,false,,,http://edamontology.org/topic_3385,,,,,,,,,,,,topic__RBsSZve5PnQFO3scMDWo9f0,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 52 | http://edamontology.org/operation__RCi5QWhY2hXnO46smg6bHRQ,Detector gain correction,,multiplicative,false,,,http://edamontology.org/operation__R7MFwdgojfmkZ07yWbdcda0,,,,,,,,,,,,operation__RCi5QWhY2hXnO46smg6bHRQ,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 53 | http://edamontology.org/topic__R7LElbFkBgKS401YKsVtNck,Transmission electron microscopy,,,false,,,http://edamontology.org/topic_0611,,,,,,,,,,,,topic__R7LElbFkBgKS401YKsVtNck,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 54 | http://edamontology.org/operation__R8V95OnTjs7fCvVXWjaXrh6,Structured illumination reconstruction,,,false,,,http://edamontology.org/operation_Image_reconstruction,,,,,,,,,,,,operation__R8V95OnTjs7fCvVXWjaXrh6,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 55 | http://edamontology.org/data_Image,Image,Image data|Image set|Set of images,,false,,,http://edamontology.org/data_0006,,,,,,,,,,,,data_Image,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Image data,Image set|Set of images,,,,,,,,,,,,,,,,,, 56 | http://edamontology.org/data__RDLZjniM2p9bxNi1Md2Vqv3,Spectral image resolution,,,false,,,http://edamontology.org/data__RCDMkOl5gzD23OFsPf6vr4a,,,,,,,,,,,,data__RDLZjniM2p9bxNi1Md2Vqv3,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 57 | http://edamontology.org/operation_Image_processing,Image processing,Image postprocessing,,false,,,http://edamontology.org/operation_0004,,,,,,,,,,,,operation_Image_processing,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Image postprocessing,,,,,,,,,,,,,,,,,, 58 | http://edamontology.org/topic__Rn8MnorStmqIkNlAVZWBc0,Confocal fluorescence microscopy,,,false,,,http://edamontology.org/topic_Fluorescent_microscopy|http://edamontology.org/topic__R9Cmje2ZUXyDW6aQAvFhwSM,,,,,,,,,,,,topic__Rn8MnorStmqIkNlAVZWBc0,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 59 | http://edamontology.org/operation_Image_registration,Image registration,Image alignment,,false,,,http://edamontology.org/operation_Image_processing|http://edamontology.org/operation_2928,,,,,,,,,,,,operation_Image_registration,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Image alignment,,,,,,,,,,,,,,,,,,, 60 | http://edamontology.org/operation_Local_thresholding,Local thresholding,,,false,,,http://edamontology.org/operation_Image_segmentation,,,,,,,,,,,,operation_Local_thresholding,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 61 | http://edamontology.org/operation__RLtOI0poPsYRHzgXbAcr2E,Affine registration,Affine image registration,,false,,,http://edamontology.org/operation_Image_registration,,,,,,,,,,,,operation__RLtOI0poPsYRHzgXbAcr2E,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Affine image registration,,,,,,,,,,,,,,,,,,, 62 | http://edamontology.org/operation_Cell_counting,Object counting,,,false,,,http://edamontology.org/operation_3443,,,,,,,,,,,,operation_Cell_counting,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 63 | http://edamontology.org/operation_Optical_flow_analysis,Optical flow analysis,,,false,,,http://edamontology.org/operation_3443,,,,,,,,,,,,operation_Optical_flow_analysis,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 64 | http://edamontology.org/data_0006,Data,Data record|Data set|Datum,"Information, represented in an information artefact (data record) that is 'understandable' by dedicated computational tools that can use the data as input or produce it as output.",false,,,http://www.w3.org/2002/07/owl#Thing,,beta12orEarlier,,,,,,,,,,data_0006,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,"Information, represented in an information artefact (data record) that is 'understandable' by dedicated computational tools that can use the data as input or produce it as output.",Data record,Data set|Datum,,,http://purl.obolibrary.org/obo/edam#edam|http://purl.obolibrary.org/obo/edam#data,,,,,,,,,,,,,,, 65 | http://edamontology.org/format_Binary_format,Binary format,,,false,,,http://edamontology.org/format_1915,,,,,,,,,,,,format_Binary_format,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 66 | http://edamontology.org/data_Greyscale,Greyscale,,,false,,,http://edamontology.org/data__RCDMkOl5gzD23OFsPf6vr4a,,,,,,,,,,,,data_Greyscale,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 67 | http://edamontology.org/operation_3434,Conversion,,,false,,,http://edamontology.org/operation_0004,,,,,,,,,,,,operation_3434,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 68 | http://edamontology.org/operation_Homogeneity,Homogeneity,,,false,,,http://edamontology.org/operation_Feature_extraction,,,,,,,,,,,,operation_Homogeneity,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 69 | http://edamontology.org/operation_Object_detection,Object detection,,,false,,,http://edamontology.org/operation_3443,,,,,,,,,,,,operation_Object_detection,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 70 | http://edamontology.org/topic_3382,Imaging,,,false,,,http://edamontology.org/topic_0003,,,,,,,,,,,,topic_3382,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 71 | http://edamontology.org/operation__R7MFwdgojfmkZ07yWbdcda0,Image correction,Instrument aberration correction|Image pre-processing|Image preprocessing,"Image correction is the removal of aberrations originating from the imaging instrument, lighting, or sample.",false,,,http://edamontology.org/operation_Image_processing,,,,,,,,,,,,operation__R7MFwdgojfmkZ07yWbdcda0,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,"Image correction is the removal of aberrations originating from the imaging instrument, lighting, or sample.",,Instrument aberration correction,Image pre-processing|Image preprocessing,,,,,,,,,,,,,,,,, 72 | http://edamontology.org/topic_Light-sheet_microscopy,Light-sheet microscopy,Spim,,false,,,http://edamontology.org/topic__RBsSZve5PnQFO3scMDWo9f0|http://edamontology.org/topic__R7Vn7GbwtqVvGWNAMGdcNW1,,,,,,,,,,,,topic_Light-sheet_microscopy,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Spim,,,,,,,,,,,,,,,,,, 73 | http://edamontology.org/format_sm2,sm2,.sm2,,false,,,http://edamontology.org/format_1915,,,,,,,,,,,,format_sm2,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,.sm2,,,,,,,,,,,,,,,,,,, 74 | http://edamontology.org/data__RCjZhkavxxifpvdNiasVVCc,Radiometric properties,,,false,,,http://edamontology.org/data__R80aNLt4YY02ByptWQa2yrY,,,,,,,,,,,,data__RCjZhkavxxifpvdNiasVVCc,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 75 | http://edamontology.org/format_hdr,hdr,.hdr,,false,,,http://edamontology.org/format_1915,,,,,,,,,,,,format_hdr,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,.hdr,,,,,,,,,,,,,,,,,,, 76 | http://edamontology.org/operation__RBNng13hEB0CJD5VzSKqrfB,Isolated object detection,,,false,,,http://edamontology.org/operation_Object_detection,,,,,,,,,,,,operation__RBNng13hEB0CJD5VzSKqrfB,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 77 | http://edamontology.org/operation_Pixel_classification,Pixel classification,,,false,,,http://edamontology.org/operation_Image_segmentation|http://edamontology.org/operation_2990|http://edamontology.org/operation_3443,,,,,,,,,,,,operation_Pixel_classification,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 78 | http://edamontology.org/operation_Feature_extraction,Object feature extraction,Feature detection|Image labeling|SURF,,false,,,http://edamontology.org/operation_3443,,,,,,,,,,,,operation_Feature_extraction,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Feature detection|Image labeling,SURF,,,,,,,,,,,,,,,,,, 79 | http://edamontology.org/operation_0004,Operation,Function|Computational procedure|Computational subroutine|Computational operation|Function (programming)|Lambda abstraction|Mathematical function|Mathematical operation|Computational method|Computational tool|sumo:Function|Process,"A function that processes a set of inputs and results in a set of outputs, or associates arguments (inputs) with values (outputs).|Special cases are: a) An operation that consumes no input (has no input arguments). Such operation is either a constant function, or an operation depending only on the underlying state. b) An operation that may modify the underlying state but has no output. c) The singular-case operation with no input or output, that still may modify the underlying state.",false,,,http://www.w3.org/2002/07/owl#Thing,,beta12orEarlier,,,,,,,,,,operation_0004,,,,,,,,,,,,,,,,,,,,,,,,,,,,Function,,"A function that processes a set of inputs and results in a set of outputs, or associates arguments (inputs) with values (outputs).",,Computational procedure|Computational subroutine|Computational operation|Function (programming)|Lambda abstraction|Mathematical function|Mathematical operation|Computational method,Computational tool|sumo:Function|Process,,http://purl.obolibrary.org/obo/edam#edam|http://purl.obolibrary.org/obo/edam#operations,,,,,,,,,,,,,,, 80 | http://edamontology.org/topic__RBNoPZIOvBhdWGe8mFNpoWQ,Fixed sample imaging,,,false,,,http://edamontology.org/topic_3382,,,,,,,,,,,,topic__RBNoPZIOvBhdWGe8mFNpoWQ,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 81 | http://edamontology.org/format_vsi,vsi,.vsi,,false,,,http://edamontology.org/format_1915,,,,,,,,,,,,format_vsi,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,.vsi,,,,,,,,,,,,,,,,,,, 82 | http://edamontology.org/topic_0003,Topic,sumo:FieldOfStudy,"A category denoting a rather broad domain or field of interest, of study, application, work, data, or technology. Topics have no clearly defined borders between each other.",false,,,http://www.w3.org/2002/07/owl#Thing,,beta12orEarlier,,,,,,,,,,topic_0003,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,"A category denoting a rather broad domain or field of interest, of study, application, work, data, or technology. Topics have no clearly defined borders between each other.",,,sumo:FieldOfStudy,,http://purl.obolibrary.org/obo/edam#edam|http://purl.obolibrary.org/obo/edam#topics,,,,,,,,,,,,,,, 83 | http://edamontology.org/format_ism,ism,,,false,,,http://edamontology.org/format_1915,,,,,,,,,,,,format_ism,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 84 | http://edamontology.org/data__R9yc0jq1eJBgmvEQwMcRSUS,Spatial image resolution,,,false,,,http://edamontology.org/data__R7Xr4YLUfGpHoI3FnAzgMnA,,,,,,,,,,,,data__R9yc0jq1eJBgmvEQwMcRSUS,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 85 | http://edamontology.org/operation_Image_deconvolution,Image deconvolution,,,false,,,http://edamontology.org/operation_Image_reconstruction,,,,,,,,,,,,operation_Image_deconvolution,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 86 | http://edamontology.org/operation_Montage,Montage,,,false,,,http://edamontology.org/operation_Image_visualisation,,,,,,,,,,,,operation_Montage,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 87 | http://edamontology.org/operation_Cell_segmentation,Cell segmentation,,,false,,,http://edamontology.org/operation_Image_segmentation,,,,,,,,,,,,operation_Cell_segmentation,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 88 | http://edamontology.org/format_mpeg,mpeg,,,false,,,http://edamontology.org/format_1915,,,,,,,,,,,,format_mpeg,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 89 | http://edamontology.org/operation__R7luNqmR6DCU2lY6ogLGmCN,Isolated object segmentation,,,false,,,http://edamontology.org/operation_Image_segmentation,,,,,,,,,,,,operation__R7luNqmR6DCU2lY6ogLGmCN,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 90 | http://edamontology.org/format_jpg,jpg,.jpg,,false,,,http://edamontology.org/format_1915,,,,,,,,,,,,format_jpg,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,.jpg,,,,,,,,,,,,,,,,,,, 91 | http://edamontology.org/operation_2990,Classification,,,false,,,http://edamontology.org/operation_0004,,,,,,,,,,,,operation_2990,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 92 | http://edamontology.org/topic__RByvmgDpAo4FOrMdvTm1gwR,Serial block-face scanning electron microscopy,,,false,,,http://edamontology.org/topic__RBZsLMTdyuEDtVe2fge61l0,,,,,,,,,,,,topic__RByvmgDpAo4FOrMdvTm1gwR,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 93 | http://edamontology.org/topic__R9P5gEAm1wic4R2PcZ7ZpPA,Transmission light microscopy,,,false,,,http://edamontology.org/topic_3385,,,,,,,,,,,,topic__R9P5gEAm1wic4R2PcZ7ZpPA,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 94 | http://edamontology.org/data__R7sy3JByrUsyKaGNYQ1eSQF,Temporal properties,,,false,,,http://edamontology.org/data__R80aNLt4YY02ByptWQa2yrY,,,,,,,,,,,,data__R7sy3JByrUsyKaGNYQ1eSQF,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 95 | http://edamontology.org/topic__RkSYwMcVWG5FCi4BaWDMaJ,High-pressure freezing,,,false,,,http://edamontology.org/topic__R77vfEkRqjIenYUqhDPvdkM,,,,,,,,,,,,topic__RkSYwMcVWG5FCi4BaWDMaJ,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 96 | http://edamontology.org/format_csv,csv,,,false,,,http://edamontology.org/format_1915,,,,,,,,,,,,format_csv,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 97 | http://edamontology.org/operation_3429,Generation,,,false,,,http://edamontology.org/operation_0004,,,,,,,,,,,,operation_3429,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 98 | http://edamontology.org/data_Colour,Colour,rgb|channel,,false,,,http://edamontology.org/data__RCDMkOl5gzD23OFsPf6vr4a,,,,,,,,,,,,data_Colour,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,rgb|channel,,,,,,,,,,,,,,,,,, 99 | http://edamontology.org/topic_Widefield_microscopy,Widefield microscopy,,,false,,,http://edamontology.org/topic_3385|http://edamontology.org/topic__RBsSZve5PnQFO3scMDWo9f0,,,,,,,,,,,,topic_Widefield_microscopy,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 100 | http://edamontology.org/operation_Image_enhancement,Image enhancement,Image filtering|Image restoration,"Image enhancement moves further away from the ""reality"", as opposed to Image reconstruction that moves closer to the ""reality"".",false,,,http://edamontology.org/operation_Image_processing,,,,,,,,,,,,operation_Image_enhancement,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Image filtering|Image restoration,,,,,,,,,,,,,,,,,, 101 | http://edamontology.org/operation_Overlay,Overlay,,,false,,,http://edamontology.org/operation_Image_visualisation,,,,,,,,,,,,operation_Overlay,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 102 | http://edamontology.org/format_stk,stk,.stk,,false,,,http://edamontology.org/format_1915,,,,,,,,,,,,format_stk,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,.stk,,,,,,,,,,,,,,,,,,, 103 | http://edamontology.org/topic__R9zg34pnGmTyzPidJj9vfJt,Focused ion beam scanning electron microscopy,FIB-SEM,,false,,,http://edamontology.org/topic__RBZsLMTdyuEDtVe2fge61l0,,,,,,,,,,,,topic__R9zg34pnGmTyzPidJj9vfJt,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,FIB-SEM,,,,,,,,,,,,,,,,,,, 104 | http://edamontology.org/format_hdf5,hdf5,,,false,,,http://edamontology.org/format_1915,,,,,,,,,,,,format_hdf5,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 105 | http://edamontology.org/operation__RDggamr21qZlMqkQmyOdC7l,Landmark detection,,,false,,,http://edamontology.org/operation_Object_detection,,,,,,,,,,,,operation__RDggamr21qZlMqkQmyOdC7l,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 106 | http://edamontology.org/topic__R8oQpUEjKZjNQCTB4x3JQuJ,Single molecule localization microscopy,,,false,,,http://edamontology.org/topic_Super-resolution_microscopy,,,,,,,,,,,,topic__R8oQpUEjKZjNQCTB4x3JQuJ,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 107 | http://edamontology.org/data__RPhipiN98zgq3wqXj4ESkT,Object shape,,,false,,,http://edamontology.org/data__Rj7rpnkJ6SPPwWkQ4x3Wik,,,,,,,,,,,,data__RPhipiN98zgq3wqXj4ESkT,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 108 | http://edamontology.org/operation__R8ANfLkuHu47r739AkhxrId,Affine,,,false,,,http://edamontology.org/operation_Geometrical_transform,,,,,,,,,,,,operation__R8ANfLkuHu47r739AkhxrId,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 109 | http://edamontology.org/operation_Illumination_correction,Illumination correction,Flat field correction,,false,,,http://edamontology.org/operation__R7MFwdgojfmkZ07yWbdcda0,,,,,,,,,,,,operation_Illumination_correction,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Flat field correction,,,,,,,,,,,,,,,,,,, 110 | http://edamontology.org/topic__RBKlmE9DGTZwEwxw0juThGg,Multi-photon microscopy,,,false,,,http://edamontology.org/topic__R7Vn7GbwtqVvGWNAMGdcNW1,,,,,,,,,,,,topic__RBKlmE9DGTZwEwxw0juThGg,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 111 | http://edamontology.org/data_Intensity,Intesity,,,false,,,http://edamontology.org/data__RCjZhkavxxifpvdNiasVVCc,,,,,,,,,,,,data_Intensity,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 112 | http://edamontology.org/topic_0593,Nuclear magnetic resonance spectroscopy,NMR,,false,,,http://edamontology.org/topic__RBfI2XgIsxcfKonPPluKAhK,,,,,,,,,,,,topic_0593,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,NMR,,,,,,,,,,,,,,,,,,, 113 | http://edamontology.org/format_1915,Format,Data model|File format,,false,,,http://www.w3.org/2002/07/owl#Thing,,,,,,,,,,,,format_1915,,,,,,,,,,,,,,,,,,,,,,,,,,,,Data model,,,,File format,,,,,,,,,,,,,,,,,, 114 | http://edamontology.org/topic__R77vfEkRqjIenYUqhDPvdkM,Cryo fixation,,,false,,,http://edamontology.org/topic__ReQzVVVh0IPyN0c1V5wQVO,,,,,,,,,,,,topic__R77vfEkRqjIenYUqhDPvdkM,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 115 | http://edamontology.org/operation_3443,Image analysis,General image analysis,,false,,,http://edamontology.org/operation__RCeFsUcF68YcEyw6iWxw2le,,,,,,,,,,,,operation_3443,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,General image analysis,,,,,,,,,,,,,,,,,, 116 | http://edamontology.org/topic__RBfI2XgIsxcfKonPPluKAhK,Spectroscopy,,,false,,,http://edamontology.org/topic_3382,,,,,,,,,,,,topic__RBfI2XgIsxcfKonPPluKAhK,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 117 | http://edamontology.org/data_2D_dataset,2D image,,,false,,,http://edamontology.org/data_Image_geometry|http://edamontology.org/data_Image,,,,,,,,,,,,data_2D_dataset,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 118 | http://edamontology.org/topic_Microscopy,Microscopy,Slide scanner,,false,,,http://edamontology.org/topic_3382,,,,,,,,,,,,topic_Microscopy,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Slide scanner,,,,,,,,,,,,,,,,,, 119 | http://edamontology.org/topic__R7Vn7GbwtqVvGWNAMGdcNW1,Point-scanning microscopy,,,false,,,http://edamontology.org/topic_3385,,,,,,,,,,,,topic__R7Vn7GbwtqVvGWNAMGdcNW1,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 120 | http://edamontology.org/topic__RtBCcu7zJiS0phrbR2HzAI,Phase contrast microscopy,,,false,,,http://edamontology.org/topic__R9P5gEAm1wic4R2PcZ7ZpPA,,,,,,,,,,,,topic__RtBCcu7zJiS0phrbR2HzAI,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 121 | http://edamontology.org/data__R0uFIvsA9tQJYZz8NM3Smk,Multi-channel image,,,false,,,http://edamontology.org/data_Image,,,,,,,,,,,,data__R0uFIvsA9tQJYZz8NM3Smk,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 122 | http://edamontology.org/operation__R9Vc5BV3ZMcLHEL6WEceXbY,Rigid registration,Rigid image registration,,false,,,http://edamontology.org/operation__RLtOI0poPsYRHzgXbAcr2E,,,,,,,,,,,,operation__R9Vc5BV3ZMcLHEL6WEceXbY,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Rigid image registration,,,,,,,,,,,,,,,,,,, 123 | http://edamontology.org/topic_High_content_screening,High content screening,hcs,,false,,,http://edamontology.org/topic_0003,,,,,,,,,,,,topic_High_content_screening,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,hcs,,,,,,,,,,,,,,,,,,, 124 | http://edamontology.org/topic_Digital_histology,Digital histology,,,false,,,http://edamontology.org/topic_0003,,,,,,,,,,,,topic_Digital_histology,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 125 | http://edamontology.org/data_1D_dataset,1D image,,,false,,,http://edamontology.org/data_Image_geometry,,,,,,,,,,,,data_1D_dataset,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 126 | http://edamontology.org/operation__RyCFuPLOeGxpcGjYbWcWWD,Isolated object classification,,,false,,,http://edamontology.org/operation_2990|http://edamontology.org/operation_3443,,,,,,,,,,,,operation__RyCFuPLOeGxpcGjYbWcWWD,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 127 | http://edamontology.org/topic__R9WwNqEL8rvkyBPk7GkDTYh,Photoacoustic tomography,PAT,,false,,,http://edamontology.org/topic_3452,,,,,,,,,,,,topic__R9WwNqEL8rvkyBPk7GkDTYh,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,PAT,,,,,,,,,,,,,,,,, 128 | http://edamontology.org/topic__R8nlu8VCuL5nvBFgOaGNHgT,Polarized light microscopy,,,false,,,http://edamontology.org/topic__R9P5gEAm1wic4R2PcZ7ZpPA,,,,,,,,,,,,topic__R8nlu8VCuL5nvBFgOaGNHgT,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 129 | http://edamontology.org/topic_Super-resolution_microscopy,Super-resolution microscopy,palm|Photoactivated localization microscopy,,false,,,http://edamontology.org/topic_Fluorescent_microscopy,,,,,,,,,,,,topic_Super-resolution_microscopy,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,palm|Photoactivated localization microscopy,,,,,,,,,,,,,,,,,, 130 | http://edamontology.org/topic_3474,Machine learning,,,false,,,http://edamontology.org/topic_0003,,,,,,,,,,,,topic_3474,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 131 | http://edamontology.org/topic__RDdX0TswBVhmWiS1dI3pghN,Bright field microscopy,,,false,,,http://edamontology.org/topic__R9P5gEAm1wic4R2PcZ7ZpPA,,,,,,,,,,,,topic__RDdX0TswBVhmWiS1dI3pghN,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 132 | http://edamontology.org/topic_3452,Tomography,,,false,,,http://edamontology.org/topic_3382,,,,,,,,,,,,topic_3452,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 133 | http://edamontology.org/operation_Linear_transformation,Linear transformation,,,false,,,http://edamontology.org/operation__R8ANfLkuHu47r739AkhxrId,,,,,,,,,,,,operation_Linear_transformation,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 134 | http://edamontology.org/operation_Anaglyph,Anaglyph,,,false,,,http://edamontology.org/operation_Image_visualisation,,,,,,,,,,,,operation_Anaglyph,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 135 | http://edamontology.org/format_tiff,tiff,.tiff,,false,,,http://edamontology.org/format_1915,,,,,,,,,,,,format_tiff,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,.tiff,,,,,,,,,,,,,,,,,,, 136 | http://edamontology.org/topic__RBHw300pzIYcttGsAmIZvk5,Ultrasonography,,,false,,,http://edamontology.org/topic_3382,,,,,,,,,,,,topic__RBHw300pzIYcttGsAmIZvk5,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 137 | http://edamontology.org/operation__RBh3vNecu5XlIPh3kbMM4Cq,Drift correction,,,false,,,http://edamontology.org/operation__R7MFwdgojfmkZ07yWbdcda0,,,,,,,,,,,,operation__RBh3vNecu5XlIPh3kbMM4Cq,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 138 | http://edamontology.org/format_roi,Region of interest,ROI,,false,,,http://edamontology.org/data_0006,,,,,,,,,,,,format_roi,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,ROI,,,,,,,,,,,,,,,,,,, 139 | http://edamontology.org/operation__RDFFD5jBfUw74a3vJeBAGB1,Image generation,,,false,,,http://edamontology.org/operation_3429,,,,,,,,,,,,operation__RDFFD5jBfUw74a3vJeBAGB1,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 140 | http://edamontology.org/topic__RDCjx86atJP685sX1zrE2ia,Cryo electron tomography,,,false,,,http://edamontology.org/topic__R9O3HmIAjoN5IqXXXRukzzr,,,,,,,,,,,,topic__RDCjx86atJP685sX1zrE2ia,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 141 | http://edamontology.org/operation_Image_measurement,Image measurement,,,false,,,http://edamontology.org/operation_Feature_extraction,,,,,,,,,,,,operation_Image_measurement,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 142 | http://edamontology.org/data__R9P4sScuriz9yN8l827hrLo,Object velocity,Object speed,,false,,,http://edamontology.org/data__Rj7rpnkJ6SPPwWkQ4x3Wik,,,,,,,,,,,,data__R9P4sScuriz9yN8l827hrLo,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Object speed,,,,,,,,,,,,,,,,,,, 143 | http://edamontology.org/topic__RBZsLMTdyuEDtVe2fge61l0,Scanning electron microscopy,,,false,,,http://edamontology.org/topic_0611,,,,,,,,,,,,topic__RBZsLMTdyuEDtVe2fge61l0,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 144 | http://edamontology.org/topic__RDos3h5yRfjhLUcOImDOFgB,Positron emission tomography,PET scan,,false,,,http://edamontology.org/topic_3452,,,,,,,,,,,,topic__RDos3h5yRfjhLUcOImDOFgB,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,PET scan,,,,,,,,,,,,,,,,,, 145 | http://edamontology.org/operation_Particle_tracking,Particle tracking,,,false,,,http://edamontology.org/operation__RDsrmC9l0bZw9kGJzGMCyY8,,,,,,,,,,,,operation_Particle_tracking,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 146 | http://edamontology.org/format_raw,raw,.raw,,false,,,http://edamontology.org/format_1915,,,,,,,,,,,,format_raw,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,.raw,,,,,,,,,,,,,,,,,,, 147 | http://edamontology.org/data__RDcwcMJia2DgGNXx2JKa8Oc,Image bit depth,,,false,,,http://edamontology.org/data_Image_geometry,,,,,,,,,,,,data__RDcwcMJia2DgGNXx2JKa8Oc,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 148 | http://edamontology.org/data__RDz7WLs6GBWl7rPjqfjKBT0,Region texture,,,false,,,http://edamontology.org/data__RCRp3XI62rYeU9aZHw4yBvj,,,,,,,,,,,,data__RDz7WLs6GBWl7rPjqfjKBT0,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 149 | http://edamontology.org/operation__Rhb4iyLUQWY4HnhPpuqNNI,Image crop,,,false,,,http://edamontology.org/operation_Image_processing,,,,,,,,,,,,operation__Rhb4iyLUQWY4HnhPpuqNNI,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 150 | http://edamontology.org/operation_Opening,Opening,,,false,,,http://edamontology.org/operation_Morphological_operations,,,,,,,,,,,,operation_Opening,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 151 | http://edamontology.org/operation__RDyyXyhf1oHK93opXhEnRND,Image denoising,Noise reduction,,false,,,http://edamontology.org/operation_Image_reconstruction|http://edamontology.org/operation_Image_enhancement,,,,,,,,,,,,operation__RDyyXyhf1oHK93opXhEnRND,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Noise reduction,,,,,,,,,,,,,,,,,,, 152 | http://edamontology.org/operation_Distance_transform,Distance transform,,,false,,,http://edamontology.org/operation_Morphological_operations,,,,,,,,,,,,operation_Distance_transform,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 153 | http://edamontology.org/format_txt,txt,.txt,,false,,,http://edamontology.org/format_1915,,,,,,,,,,,,format_txt,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,.txt,,,,,,,,,,,,,,,,,,, 154 | http://edamontology.org/operation_Texture_features,Texture features,,,false,,,http://edamontology.org/operation_Feature_extraction,,,,,,,,,,,,operation_Texture_features,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 155 | http://edamontology.org/format_avi,avi,.avi,,false,,,http://edamontology.org/format_1915,,,,,,,,,,,,format_avi,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,.avi,,,,,,,,,,,,,,,,,,, 156 | http://edamontology.org/data_3D_dataset,3D image,Image stack,,false,,,http://edamontology.org/data_Image_geometry|http://edamontology.org/data_Image,,,,,,,,,,,,data_3D_dataset,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Image stack,,,,,,,,,,,,,,,,, 157 | http://edamontology.org/data_Trajectory,Object trajectory,,,false,,,http://edamontology.org/data__Rj7rpnkJ6SPPwWkQ4x3Wik,,,,,,,,,,,,data_Trajectory,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 158 | http://edamontology.org/format_sm3,sm3,.sm3,,false,,,http://edamontology.org/format_1915,,,,,,,,,,,,format_sm3,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,.sm3,,,,,,,,,,,,,,,,,,, 159 | http://edamontology.org/topic__RBDp7HwdUBEjpS6PRjYfV2V,Bioimage informatics,,,false,,,http://edamontology.org/topic_0003,,,,,,,,,,,,topic__RBDp7HwdUBEjpS6PRjYfV2V,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 160 | http://edamontology.org/operation_Interactive_segmentation,Interactive segmentation,,,false,,,http://edamontology.org/operation_Image_segmentation,,,,,,,,,,,,operation_Interactive_segmentation,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 161 | http://edamontology.org/operation__RDr8xcZEa4L3mZsslmhhee8,Chromatic aberration correction,Channel shift correction,,false,,,http://edamontology.org/operation__R7MFwdgojfmkZ07yWbdcda0,,,,,,,,,,,,operation__RDr8xcZEa4L3mZsslmhhee8,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Channel shift correction,,,,,,,,,,,,,,,,, 162 | http://edamontology.org/topic__R8Ss4wIFt90wZ1yjFLfXyPM,Correlative Light and Electron Microscopy,CLEM,,false,,,http://edamontology.org/topic_Microscopy,,,,,,,,,,,,topic__R8Ss4wIFt90wZ1yjFLfXyPM,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,CLEM,,,,,,,,,,,,,,,,,,, 163 | http://edamontology.org/operation_Watershed,Watershed,,,false,,,http://edamontology.org/operation_Image_segmentation,,,,,,,,,,,,operation_Watershed,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 164 | http://edamontology.org/operation_2423,Prediction and recognition,,,false,,,http://edamontology.org/operation_0004,,,,,,,,,,,,operation_2423,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 165 | http://edamontology.org/operation_Geometrical_transform,Geometrical transform,,,false,,,http://edamontology.org/operation_Image_processing,,,,,,,,,,,,operation_Geometrical_transform,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 166 | http://edamontology.org/topic__R89wYXZ2735GXdn4m4GOT9n,Dark field microscopy,,,false,,,http://edamontology.org/topic__R9P5gEAm1wic4R2PcZ7ZpPA,,,,,,,,,,,,topic__R89wYXZ2735GXdn4m4GOT9n,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 167 | http://edamontology.org/operation__R9EjejimBB0tmnQRmZt0RhA,Object registration,,,false,,,http://edamontology.org/operation_3443,,,,,,,,,,,,operation__R9EjejimBB0tmnQRmZt0RhA,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 168 | http://edamontology.org/data__RCRp3XI62rYeU9aZHw4yBvj,Region properies,,,false,,,http://edamontology.org/data_0006,,,,,,,,,,,,data__RCRp3XI62rYeU9aZHw4yBvj,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 169 | http://edamontology.org/topic_3444,Magnetic resonance imaging,MRI,,false,,,http://edamontology.org/topic_3382,,,,,,,,,,,,topic_3444,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,MRI,,,,,,,,,,,,,,,,,,, 170 | http://edamontology.org/topic__RC91JqkkQnsmvg8zuG6Td7q,Structured illumination microscopy,,,false,,,http://edamontology.org/topic_Super-resolution_microscopy,,,,,,,,,,,,topic__RC91JqkkQnsmvg8zuG6Td7q,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 171 | http://edamontology.org/topic__RxfmHE99gOkUOOML5krfsJ,Computerized tomography,CT,,false,,,http://edamontology.org/topic_3452,,,,,,,,,,,,topic__RxfmHE99gOkUOOML5krfsJ,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,CT,,,,,,,,,,,,,,,,,, 172 | http://edamontology.org/operation_Morphological_operations,Morphological operation,Morphological image processing,,false,,,http://edamontology.org/operation_Image_processing,,,,,,,,,,,,operation_Morphological_operations,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Morphological image processing,,,,,,,,,,,,,,,,,,, 173 | http://edamontology.org/data__Rj7rpnkJ6SPPwWkQ4x3Wik,Object characteristics,Object data|Object feature|Object measurement,,false,,,http://edamontology.org/data_0006,,,,,,,,,,,,data__Rj7rpnkJ6SPPwWkQ4x3Wik,,,,,,,,,,,,,,,,,,,,,,,,,,,,Object data,,,Object feature,Object measurement,,,,,,,,,,,,,,,,,, 174 | http://edamontology.org/data_Volume,Volume,,,false,,,http://edamontology.org/data__R7Xr4YLUfGpHoI3FnAzgMnA,,,,,,,,,,,,data_Volume,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 175 | http://edamontology.org/data__RCMgLYJyn9WJyCc3bA23xT1,Image time series,Time-series image|Movie|Time-lapse image|Video sequence,,false,,,http://edamontology.org/data_Image|http://edamontology.org/data_Time-lapse_data,,,,,,,,,,,,data__RCMgLYJyn9WJyCc3bA23xT1,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Time-series image,Movie|Time-lapse image|Video sequence,,,,,,,,,,,,,,,,,, 176 | http://edamontology.org/operation_3441,Plotting,,"Visualisation vs Plotting vs Image generation 177 | Should these be merged? 178 | Which of these should be the top concept, and which sub-concepts, and which narrow synonyms?",false,,,http://edamontology.org/operation_0337,,,,,,,,,,,,operation_3441,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 179 | http://edamontology.org/data__R7Xr4YLUfGpHoI3FnAzgMnA,Spatial properties,,,false,,,http://edamontology.org/data__R80aNLt4YY02ByptWQa2yrY,,,,,,,,,,,,data__R7Xr4YLUfGpHoI3FnAzgMnA,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 180 | http://edamontology.org/data_Time-lapse_data,Time-lapse data,,,false,,,http://edamontology.org/data__R7sy3JByrUsyKaGNYQ1eSQF,,,,,,,,,,,,data_Time-lapse_data,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 181 | http://edamontology.org/topic__ReQzVVVh0IPyN0c1V5wQVO,Sample preparation,,,false,,,http://edamontology.org/topic_0003,,,,,,,,,,,,topic__ReQzVVVh0IPyN0c1V5wQVO,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 182 | http://edamontology.org/topic__RB4unXFUWvdBe91ihVAA9rR,Ex-vivo imaging,,,false,,,http://edamontology.org/topic__RL4rPCXlIu9uzNrGcbcSNp,,,,,,,,,,,,topic__RB4unXFUWvdBe91ihVAA9rR,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 183 | http://edamontology.org/operation_Edge_detection,Edge enhancement,Edge detection,,false,,,http://edamontology.org/operation_Image_segmentation|http://edamontology.org/operation_Image_enhancement,,,,,,,,,,,,operation_Edge_detection,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Edge detection,,,,,,,,,,,,,,,,, 184 | http://edamontology.org/format_scn,scn,.scn,,false,,,http://edamontology.org/format_1915,,,,,,,,,,,,format_scn,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,.scn,,,,,,,,,,,,,,,,,,, 185 | http://edamontology.org/format_dat,dat,.dat,,false,,,http://edamontology.org/format_1915,,,,,,,,,,,,format_dat,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,.dat,,,,,,,,,,,,,,,,,,, 186 | http://edamontology.org/operation__R9FvNkpDIaqZQhLVlPsHisj,Synthetic image generation,,,false,,,http://edamontology.org/operation__RDFFD5jBfUw74a3vJeBAGB1,,,,,,,,,,,,operation__R9FvNkpDIaqZQhLVlPsHisj,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 187 | http://edamontology.org/operation_Image_stitching,Image stitching,,,false,,,http://edamontology.org/operation_Image_reconstruction,,,,,,,,,,,,operation_Image_stitching,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 188 | http://edamontology.org/topic__R9O3HmIAjoN5IqXXXRukzzr,Electron tomography,,,false,,,http://edamontology.org/topic__R7LElbFkBgKS401YKsVtNck,,,,,,,,,,,,topic__R9O3HmIAjoN5IqXXXRukzzr,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 189 | http://edamontology.org/data_4D_dataset,nD image,,,false,,,http://edamontology.org/data_Image_geometry,,,,,,,,,,,,data_4D_dataset,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 190 | http://edamontology.org/operation_2409,Data handling,,,false,,,http://edamontology.org/operation_0004,,,,,,,,,,,,operation_2409,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 191 | http://edamontology.org/operation_Projection,Image projection,Minimum projection|Maximum projection|Maximum intensity projection|Mean projection,,false,,,http://edamontology.org/operation_Image_reconstruction,,,,,,,,,,,,operation_Projection,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Minimum projection|Maximum projection,Maximum intensity projection|Mean projection,,,,,,,,,,,,,,,,,, 192 | http://edamontology.org/operation__RDetoixS3xEu0agR2CebaoB,Pattern recognition,,,false,,,http://edamontology.org/operation_2423,,,,,,,,,,,,operation__RDetoixS3xEu0agR2CebaoB,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 193 | http://edamontology.org/operation_Active_contours,Active contours,,"ToDo: relation of this to ""Contours"" ?",false,,,http://edamontology.org/operation_Image_segmentation,,,,,,,,,,,,operation_Active_contours,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 194 | http://edamontology.org/topic__R9Cmje2ZUXyDW6aQAvFhwSM,Confocal microscopy,,,false,,,http://edamontology.org/topic__R7Vn7GbwtqVvGWNAMGdcNW1,,,,,,,,,,,,topic__R9Cmje2ZUXyDW6aQAvFhwSM,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 195 | http://edamontology.org/operation_Image_colocalization,Image co-allocation,Image colocalisation|Manders coefficient,,false,,,http://edamontology.org/operation_3443,,,,,,,,,,,,operation_Image_colocalization,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Image colocalisation,Manders coefficient,,,,,,,,,,,,,,,,,, 196 | http://edamontology.org/operation__RCeFsUcF68YcEyw6iWxw2le,Analysis,,,false,,,http://edamontology.org/operation_0004,,,,,,,,,,,,operation__RCeFsUcF68YcEyw6iWxw2le,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 197 | http://edamontology.org/format_img,img,.img,,false,,,http://edamontology.org/format_1915,,,,,,,,,,,,format_img,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,.img,,,,,,,,,,,,,,,,,,, 198 | http://edamontology.org/operation_2928,Alignment construction,,,false,,,http://edamontology.org/operation_0004,,,,,,,,,,,,operation_2928,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 199 | http://edamontology.org/topic__RDvZSyRAcr8fonKvKdVoXw2,Bioluminescence imaging,,,false,,,http://edamontology.org/topic_3382,,,,,,,,,,,,topic__RDvZSyRAcr8fonKvKdVoXw2,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 200 | http://edamontology.org/format_xml,xml,.xml,,false,,,http://edamontology.org/format_1915,,,,,,,,,,,,format_xml,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,.xml,,,,,,,,,,,,,,,,,,, 201 | http://edamontology.org/topic__R7WRbf9Y8ySw9QWPwAjzcUa,In-vitro imaging,,,false,,,http://edamontology.org/topic__RL4rPCXlIu9uzNrGcbcSNp,,,,,,,,,,,,topic__R7WRbf9Y8ySw9QWPwAjzcUa,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 202 | http://edamontology.org/topic_Statistics,Statistics,,,false,,,http://edamontology.org/topic_0003,,,,,,,,,,,,topic_Statistics,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 203 | http://edamontology.org/topic__RwTXNChEQ9hv7IpvHjQGin,Data sharing,,,false,,,http://edamontology.org/topic_0003,,,,,,,,,,,,topic__RwTXNChEQ9hv7IpvHjQGin,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 204 | http://edamontology.org/operation_Volume_rendering,Volume rendering,,,false,,,http://edamontology.org/operation_Image_visualisation,,,,,,,,,,,,operation_Volume_rendering,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 205 | http://edamontology.org/operation_Contours,operation_Contours,Contours,"ToDo: relation of this to ""Active contours"" ?",false,,,http://edamontology.org/operation_Image_segmentation,,,,,,,,,,,,operation_Contours,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Contours,,,,,,,,,,,,,,,,,,, 206 | http://edamontology.org/operation_Texture_extraction,Texture extraction,Inverse Difference Moment,,false,,,http://edamontology.org/operation_Feature_extraction,,,,,,,,,,,,operation_Texture_extraction,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Inverse Difference Moment,,,,,,,,,,,,,,,,,, 207 | http://edamontology.org/format_tif,tif,,,false,,,http://edamontology.org/format_1915,,,,,,,,,,,,format_tif,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 208 | http://edamontology.org/data_Image_histogram,Image histogram,,,false,,,http://edamontology.org/data_0006,,,,,,,,,,,,data_Image_histogram,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 209 | http://edamontology.org/topic__R9BRNdBzbmc9zAnc5qpx5Kp,Sample,,,false,,,http://edamontology.org/topic_0003,,,,,,,,,,,,topic__R9BRNdBzbmc9zAnc5qpx5Kp,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 210 | http://edamontology.org/operation__R9Qf06vxvFj2UbAk7pW3IMG,Filament tracing,,,false,,,http://edamontology.org/operation_3443,,,,,,,,,,,,operation__R9Qf06vxvFj2UbAk7pW3IMG,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 211 | http://edamontology.org/operation__R8EfungVXA0oQM2Ac7YY5eu,Single molecule localisation,PAINT image reconstruction|STORM image reconstruction|SMLM image reconstruction|Single-molecule localisation microscopy image reconstruction|PALM image reconstruction,,false,,,http://edamontology.org/operation_Image_reconstruction|http://edamontology.org/operation__RBNng13hEB0CJD5VzSKqrfB,,,,,,,,,,,,operation__R8EfungVXA0oQM2Ac7YY5eu,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,PAINT image reconstruction|STORM image reconstruction|SMLM image reconstruction|Single-molecule localisation microscopy image reconstruction|PALM image reconstruction,,,,,,,,,,,,,,,,,, 212 | http://edamontology.org/topic__RMctC69gGv9qYqwKCXxeLF,Plunge freezing,,,false,,,http://edamontology.org/topic__R77vfEkRqjIenYUqhDPvdkM,,,,,,,,,,,,topic__RMctC69gGv9qYqwKCXxeLF,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 213 | http://edamontology.org/operation_Cell_tracking,Cell tracking,,,false,,,http://edamontology.org/operation__RDsrmC9l0bZw9kGJzGMCyY8,,,,,,,,,,,,operation_Cell_tracking,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 214 | http://edamontology.org/data_Time,Time,,,false,,,http://edamontology.org/data__R7sy3JByrUsyKaGNYQ1eSQF,,,,,,,,,,,,data_Time,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 215 | http://edamontology.org/operation__RBUpi1JSczmHQSf8Q8fDzG5,Collective object tracking,Wound healing analysis|Scratch assay analysis,,false,,,http://edamontology.org/operation_Image_tracking,,,,,,,,,,,,operation__RBUpi1JSczmHQSf8Q8fDzG5,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Wound healing analysis|Scratch assay analysis,,,,,,,,,,,,,,,,, 216 | http://edamontology.org/format_ims,ims,.ims,,false,,,http://edamontology.org/format_1915,,,,,,,,,,,,format_ims,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,.ims,,,,,,,,,,,,,,,,,,, 217 | -------------------------------------------------------------------------------- /releases/EDAM-bioimaging_alpha02.tsv: -------------------------------------------------------------------------------- 1 | Class ID Preferred Label Synonyms Definitions Obsolete CUI Semantic Types Parents Citation Created in Documentation Example File extension has format has function has identifier has input has output has topic http://data.bioontology.org/metadata/prefixIRI http://edamontology.org/next_id http://edamontology.org/noClue http://purl.obolibrary.org/obo/date http://purl.obolibrary.org/obo/default-relationship-id-prefix http://purl.obolibrary.org/obo/edam#data http://purl.obolibrary.org/obo/edam#edam http://purl.obolibrary.org/obo/edam#events http://purl.obolibrary.org/obo/edam#formats http://purl.obolibrary.org/obo/edam#identifiers http://purl.obolibrary.org/obo/edam#obsolete http://purl.obolibrary.org/obo/edam#operations http://purl.obolibrary.org/obo/edam#topics http://purl.obolibrary.org/obo/idspace http://purl.obolibrary.org/obo/is_anti_symmetric http://purl.obolibrary.org/obo/is_metadata_tag http://purl.obolibrary.org/obo/is_reflexive http://purl.obolibrary.org/obo/is_symmetric http://purl.obolibrary.org/obo/namespace http://purl.obolibrary.org/obo/remark http://purl.obolibrary.org/obo/transitive_over http://purl.org/dc/elements/1.1/contributor http://purl.org/dc/elements/1.1/creator http://purl.org/dc/elements/1.1/format http://purl.org/dc/elements/1.1/title http://usefulinc.com/ns/doap#Version http://www.geneontology.org/formats/oboInOwl#consider http://www.geneontology.org/formats/oboInOwl#hasAlternativeId http://www.geneontology.org/formats/oboInOwl#hasBroadSynonym http://www.geneontology.org/formats/oboInOwl#hasDbXref http://www.geneontology.org/formats/oboInOwl#hasDefinition http://www.geneontology.org/formats/oboInOwl#hasExactSynonym http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym http://www.geneontology.org/formats/oboInOwl#hasSubset http://www.geneontology.org/formats/oboInOwl#inSubset http://www.geneontology.org/formats/oboInOwl#isCyclic http://www.geneontology.org/formats/oboInOwl#replacedBy http://www.geneontology.org/formats/oboInOwl#savedBy http://www.geneontology.org/formats/oboInOwl#SubsetProperty http://xmlns.com/foaf/0.1/page is format of is function of is identifier of is input of is output of is topic of isdebtag Media type Obsolete since Regular expression 2 | http://edamontology.org/data__R0uFIvsA9tQJYZz8NM3Smk Multi-channel image FALSE http://edamontology.org/data_Image data__R0uFIvsA9tQJYZz8NM3Smk 3 | http://edamontology.org/data__R7sy3JByrUsyKaGNYQ1eSQF Temporal properties FALSE http://edamontology.org/data__R80aNLt4YY02ByptWQa2yrY data__R7sy3JByrUsyKaGNYQ1eSQF 4 | http://edamontology.org/data__R7Vdp7H5PzNJiqA7JaEEPrJ Image radiometric noise characteristics FALSE http://edamontology.org/data__RDr5D5pOVdnB8hASL1LG8HH data__R7Vdp7H5PzNJiqA7JaEEPrJ 5 | http://edamontology.org/data__R7Xr4YLUfGpHoI3FnAzgMnA Spatial properties FALSE http://edamontology.org/data__R80aNLt4YY02ByptWQa2yrY data__R7Xr4YLUfGpHoI3FnAzgMnA 6 | http://edamontology.org/data__R80aNLt4YY02ByptWQa2yrY Image characteristics Image metadata FALSE http://edamontology.org/data_0006 data__R80aNLt4YY02ByptWQa2yrY Image metadata 7 | http://edamontology.org/data__R9P4sScuriz9yN8l827hrLo Object velocity Object speed FALSE http://edamontology.org/data__Rj7rpnkJ6SPPwWkQ4x3Wik data__R9P4sScuriz9yN8l827hrLo Object speed 8 | http://edamontology.org/data__R9yc0jq1eJBgmvEQwMcRSUS Spatial image resolution FALSE http://edamontology.org/data__R7Xr4YLUfGpHoI3FnAzgMnA data__R9yc0jq1eJBgmvEQwMcRSUS 9 | http://edamontology.org/data__RCDMkOl5gzD23OFsPf6vr4a Spectral properties FALSE http://edamontology.org/data__R80aNLt4YY02ByptWQa2yrY data__RCDMkOl5gzD23OFsPf6vr4a 10 | http://edamontology.org/data__RCjZhkavxxifpvdNiasVVCc Radiometric properties FALSE http://edamontology.org/data__R80aNLt4YY02ByptWQa2yrY data__RCjZhkavxxifpvdNiasVVCc 11 | http://edamontology.org/data__RCMgLYJyn9WJyCc3bA23xT1 Image time series Time-series image|Movie|Time-lapse image|Video sequence FALSE http://edamontology.org/data_Image|http://edamontology.org/data_Time-lapse_data data__RCMgLYJyn9WJyCc3bA23xT1 Time-series image Movie|Time-lapse image|Video sequence 12 | http://edamontology.org/data__RCOwaNKaK3gFcUhkjBq7aor Image data Image "So far consensus: Primary term Image data, exact synonym Image, meaning image or a set of (related) images (forming e.g. a stack or a time-lapse). No synonyms for stacks and ""movies"", these should be specialised concepts." FALSE http://edamontology.org/data_0006 data__RCOwaNKaK3gFcUhkjBq7aor Image 13 | http://edamontology.org/data__RCRp3XI62rYeU9aZHw4yBvj Region properies FALSE http://edamontology.org/data_0006 data__RCRp3XI62rYeU9aZHw4yBvj 14 | http://edamontology.org/data__RDcwcMJia2DgGNXx2JKa8Oc Image bit depth FALSE http://edamontology.org/data_Image_geometry data__RDcwcMJia2DgGNXx2JKa8Oc 15 | http://edamontology.org/data__RDLZjniM2p9bxNi1Md2Vqv3 Spectral image resolution FALSE http://edamontology.org/data__RCDMkOl5gzD23OFsPf6vr4a data__RDLZjniM2p9bxNi1Md2Vqv3 16 | http://edamontology.org/data__RDr5D5pOVdnB8hASL1LG8HH Image radiometric noise FALSE http://edamontology.org/data__RCjZhkavxxifpvdNiasVVCc data__RDr5D5pOVdnB8hASL1LG8HH 17 | http://edamontology.org/data__RDz7WLs6GBWl7rPjqfjKBT0 Region texture FALSE http://edamontology.org/data__RCRp3XI62rYeU9aZHw4yBvj data__RDz7WLs6GBWl7rPjqfjKBT0 18 | http://edamontology.org/data__Rj7rpnkJ6SPPwWkQ4x3Wik Object characteristics Object data|Object feature|Object measurement FALSE http://edamontology.org/data_0006 data__Rj7rpnkJ6SPPwWkQ4x3Wik Object data Object feature Object measurement 19 | http://edamontology.org/data__RPhipiN98zgq3wqXj4ESkT Object shape FALSE http://edamontology.org/data__Rj7rpnkJ6SPPwWkQ4x3Wik data__RPhipiN98zgq3wqXj4ESkT 20 | http://edamontology.org/data_0006 Data Data record|Data set|Datum "Information, represented in an information artefact (data record) that is 'understandable' by dedicated computational tools that can use the data as input or produce it as output." FALSE http://www.w3.org/2002/07/owl#Thing beta12orEarlier data_0006 "Information, represented in an information artefact (data record) that is 'understandable' by dedicated computational tools that can use the data as input or produce it as output." Data record Data set|Datum http://purl.obolibrary.org/obo/edam#edam|http://purl.obolibrary.org/obo/edam#data 21 | http://edamontology.org/data_1D_dataset 1D image FALSE http://edamontology.org/data_Image_geometry data_1D_dataset 22 | http://edamontology.org/data_2D_dataset 2D image FALSE http://edamontology.org/data_Image_geometry|http://edamontology.org/data_Image data_2D_dataset 23 | http://edamontology.org/data_3D_dataset 3D image Image stack FALSE http://edamontology.org/data_Image_geometry|http://edamontology.org/data_Image data_3D_dataset Image stack 24 | http://edamontology.org/data_4D_dataset nD image FALSE http://edamontology.org/data_Image_geometry data_4D_dataset 25 | http://edamontology.org/data_Colour Colour rgb|channel FALSE http://edamontology.org/data__RCDMkOl5gzD23OFsPf6vr4a data_Colour rgb|channel 26 | http://edamontology.org/data_Greyscale Greyscale FALSE http://edamontology.org/data__RCDMkOl5gzD23OFsPf6vr4a data_Greyscale 27 | http://edamontology.org/data_Image Image Image data|Image set|Set of images FALSE http://edamontology.org/data_0006 data_Image Image data Image set|Set of images 28 | http://edamontology.org/data_Image_geometry Image data properties FALSE http://edamontology.org/data__R80aNLt4YY02ByptWQa2yrY data_Image_geometry 29 | http://edamontology.org/data_Image_histogram Image histogram FALSE http://edamontology.org/data_0006 data_Image_histogram 30 | http://edamontology.org/data_Intensity Intesity FALSE http://edamontology.org/data__RCjZhkavxxifpvdNiasVVCc data_Intensity 31 | http://edamontology.org/data_Time Time FALSE http://edamontology.org/data__R7sy3JByrUsyKaGNYQ1eSQF data_Time 32 | http://edamontology.org/data_Time-lapse_data Time-lapse data FALSE http://edamontology.org/data__R7sy3JByrUsyKaGNYQ1eSQF data_Time-lapse_data 33 | http://edamontology.org/data_Trajectory Object trajectory FALSE http://edamontology.org/data__Rj7rpnkJ6SPPwWkQ4x3Wik data_Trajectory 34 | http://edamontology.org/data_Volume Volume FALSE http://edamontology.org/data__R7Xr4YLUfGpHoI3FnAzgMnA data_Volume 35 | http://edamontology.org/format_1915 Format Data model|File format FALSE http://www.w3.org/2002/07/owl#Thing format_1915 Data model File format 36 | http://edamontology.org/format_avi avi .avi FALSE http://edamontology.org/format_1915 format_avi .avi 37 | http://edamontology.org/format_Binary_format Binary format FALSE http://edamontology.org/format_1915 format_Binary_format 38 | http://edamontology.org/format_csv csv FALSE http://edamontology.org/format_1915 format_csv 39 | http://edamontology.org/format_dat dat .dat FALSE http://edamontology.org/format_1915 format_dat .dat 40 | http://edamontology.org/format_hdf5 hdf5 FALSE http://edamontology.org/format_1915 format_hdf5 41 | http://edamontology.org/format_hdr hdr .hdr FALSE http://edamontology.org/format_1915 format_hdr .hdr 42 | http://edamontology.org/format_img img .img FALSE http://edamontology.org/format_1915 format_img .img 43 | http://edamontology.org/format_ims ims .ims FALSE http://edamontology.org/format_1915 format_ims .ims 44 | http://edamontology.org/format_ism ism FALSE http://edamontology.org/format_1915 format_ism 45 | http://edamontology.org/format_jpg jpg .jpg FALSE http://edamontology.org/format_1915 format_jpg .jpg 46 | http://edamontology.org/format_mpeg mpeg FALSE http://edamontology.org/format_1915 format_mpeg 47 | http://edamontology.org/format_raw raw .raw FALSE http://edamontology.org/format_1915 format_raw .raw 48 | http://edamontology.org/format_roi Region of interest ROI FALSE http://edamontology.org/data_0006 format_roi ROI 49 | http://edamontology.org/format_scn scn .scn FALSE http://edamontology.org/format_1915 format_scn .scn 50 | http://edamontology.org/format_sm2 sm2 .sm2 FALSE http://edamontology.org/format_1915 format_sm2 .sm2 51 | http://edamontology.org/format_sm3 sm3 .sm3 FALSE http://edamontology.org/format_1915 format_sm3 .sm3 52 | http://edamontology.org/format_stk stk .stk FALSE http://edamontology.org/format_1915 format_stk .stk 53 | http://edamontology.org/format_tif tif FALSE http://edamontology.org/format_1915 format_tif 54 | http://edamontology.org/format_tiff tiff .tiff FALSE http://edamontology.org/format_1915 format_tiff .tiff 55 | http://edamontology.org/format_txt txt .txt FALSE http://edamontology.org/format_1915 format_txt .txt 56 | http://edamontology.org/format_vsi vsi .vsi FALSE http://edamontology.org/format_1915 format_vsi .vsi 57 | http://edamontology.org/format_xml xml .xml FALSE http://edamontology.org/format_1915 format_xml .xml 58 | http://edamontology.org/operation__R1NVO6hpWWcs99UiEFiOfK Tomography reconstruction FALSE http://edamontology.org/operation_Image_reconstruction operation__R1NVO6hpWWcs99UiEFiOfK 59 | http://edamontology.org/operation__R3BGvVm77d5vFMF6f28ZiW Geometric distortion correction lens distortion correction FALSE http://edamontology.org/operation__R7MFwdgojfmkZ07yWbdcda0 operation__R3BGvVm77d5vFMF6f28ZiW lens distortion correction 60 | http://edamontology.org/operation__R7luNqmR6DCU2lY6ogLGmCN Isolated object segmentation FALSE http://edamontology.org/operation_Image_segmentation operation__R7luNqmR6DCU2lY6ogLGmCN 61 | http://edamontology.org/operation__R7MFwdgojfmkZ07yWbdcda0 Image correction Instrument aberration correction|Image pre-processing|Image preprocessing "Image correction is the removal of aberrations originating from the imaging instrument, lighting, or sample." FALSE http://edamontology.org/operation_Image_processing operation__R7MFwdgojfmkZ07yWbdcda0 "Image correction is the removal of aberrations originating from the imaging instrument, lighting, or sample." Instrument aberration correction Image pre-processing|Image preprocessing 62 | http://edamontology.org/operation__R7qn3VpJyCAPGqdW6ia3h2d Spectral unmixing Color deconvolution FALSE http://edamontology.org/operation__R7MFwdgojfmkZ07yWbdcda0 operation__R7qn3VpJyCAPGqdW6ia3h2d Color deconvolution 63 | http://edamontology.org/operation__R8ANfLkuHu47r739AkhxrId Affine FALSE http://edamontology.org/operation_Geometrical_transform operation__R8ANfLkuHu47r739AkhxrId 64 | http://edamontology.org/operation__R8EfungVXA0oQM2Ac7YY5eu Single molecule localisation PAINT image reconstruction|STORM image reconstruction|SMLM image reconstruction|Single-molecule localisation microscopy image reconstruction|PALM image reconstruction FALSE http://edamontology.org/operation_Image_reconstruction|http://edamontology.org/operation__RBNng13hEB0CJD5VzSKqrfB operation__R8EfungVXA0oQM2Ac7YY5eu PAINT image reconstruction|STORM image reconstruction|SMLM image reconstruction|Single-molecule localisation microscopy image reconstruction|PALM image reconstruction 65 | http://edamontology.org/operation__R8V95OnTjs7fCvVXWjaXrh6 Structured illumination reconstruction FALSE http://edamontology.org/operation_Image_reconstruction operation__R8V95OnTjs7fCvVXWjaXrh6 66 | http://edamontology.org/operation__R9EjejimBB0tmnQRmZt0RhA Object registration FALSE http://edamontology.org/operation_3443 operation__R9EjejimBB0tmnQRmZt0RhA 67 | http://edamontology.org/operation__R9FvNkpDIaqZQhLVlPsHisj Synthetic image generation FALSE http://edamontology.org/operation__RDFFD5jBfUw74a3vJeBAGB1 operation__R9FvNkpDIaqZQhLVlPsHisj 68 | http://edamontology.org/operation__R9Qf06vxvFj2UbAk7pW3IMG Filament tracing FALSE http://edamontology.org/operation_3443 operation__R9Qf06vxvFj2UbAk7pW3IMG 69 | http://edamontology.org/operation__R9Vc5BV3ZMcLHEL6WEceXbY Rigid registration Rigid image registration FALSE http://edamontology.org/operation__RLtOI0poPsYRHzgXbAcr2E operation__R9Vc5BV3ZMcLHEL6WEceXbY Rigid image registration 70 | http://edamontology.org/operation__RBh3vNecu5XlIPh3kbMM4Cq Drift correction FALSE http://edamontology.org/operation__R7MFwdgojfmkZ07yWbdcda0 operation__RBh3vNecu5XlIPh3kbMM4Cq 71 | http://edamontology.org/operation__RBNng13hEB0CJD5VzSKqrfB Isolated object detection FALSE http://edamontology.org/operation_Object_detection operation__RBNng13hEB0CJD5VzSKqrfB 72 | http://edamontology.org/operation__RBPObKBKIMwjdLygBOlvojW Selective plane illumination microscopy reconstruction FALSE http://edamontology.org/operation_Image_reconstruction operation__RBPObKBKIMwjdLygBOlvojW 73 | http://edamontology.org/operation__RBUpi1JSczmHQSf8Q8fDzG5 Collective object tracking Wound healing analysis|Scratch assay analysis FALSE http://edamontology.org/operation_Image_tracking operation__RBUpi1JSczmHQSf8Q8fDzG5 Wound healing analysis|Scratch assay analysis 74 | http://edamontology.org/operation__RBYLqCqN4rP7Jy5m5mxpTeM Frequency analysis Fast Fourier transform|FFT|Wavelet transform Add Wikipedia links FALSE http://edamontology.org/operation_Image_processing|http://edamontology.org/operation__RCeFsUcF68YcEyw6iWxw2le operation__RBYLqCqN4rP7Jy5m5mxpTeM Fast Fourier transform|FFT|Wavelet transform 75 | http://edamontology.org/operation__RCeFsUcF68YcEyw6iWxw2le Analysis FALSE http://edamontology.org/operation_0004 operation__RCeFsUcF68YcEyw6iWxw2le 76 | http://edamontology.org/operation__RCi5QWhY2hXnO46smg6bHRQ Detector gain correction multiplicative FALSE http://edamontology.org/operation__R7MFwdgojfmkZ07yWbdcda0 operation__RCi5QWhY2hXnO46smg6bHRQ 77 | http://edamontology.org/operation__RCPVGO34XrwrJasQ5yWBg9k Deformable registration Elastic registration FALSE http://edamontology.org/operation_Image_registration operation__RCPVGO34XrwrJasQ5yWBg9k Elastic registration 78 | http://edamontology.org/operation__RDetoixS3xEu0agR2CebaoB Pattern recognition FALSE http://edamontology.org/operation_2423 operation__RDetoixS3xEu0agR2CebaoB 79 | http://edamontology.org/operation__RDFFD5jBfUw74a3vJeBAGB1 Image generation FALSE http://edamontology.org/operation_3429 operation__RDFFD5jBfUw74a3vJeBAGB1 80 | http://edamontology.org/operation__RDggamr21qZlMqkQmyOdC7l Landmark detection FALSE http://edamontology.org/operation_Object_detection operation__RDggamr21qZlMqkQmyOdC7l 81 | http://edamontology.org/operation__RDlueIjODveP3FyOknVAqo5 Detector bias correction Camera bias correction additive FALSE http://edamontology.org/operation__R7MFwdgojfmkZ07yWbdcda0 operation__RDlueIjODveP3FyOknVAqo5 Camera bias correction 82 | http://edamontology.org/operation__RDr8xcZEa4L3mZsslmhhee8 Chromatic aberration correction Channel shift correction FALSE http://edamontology.org/operation__R7MFwdgojfmkZ07yWbdcda0 operation__RDr8xcZEa4L3mZsslmhhee8 Channel shift correction 83 | http://edamontology.org/operation__RDsrmC9l0bZw9kGJzGMCyY8 Isolated object tracking FALSE http://edamontology.org/operation_Image_tracking operation__RDsrmC9l0bZw9kGJzGMCyY8 84 | http://edamontology.org/operation__RDyyXyhf1oHK93opXhEnRND Image denoising Noise reduction FALSE http://edamontology.org/operation_Image_reconstruction|http://edamontology.org/operation_Image_enhancement operation__RDyyXyhf1oHK93opXhEnRND Noise reduction 85 | http://edamontology.org/operation__Rhb4iyLUQWY4HnhPpuqNNI Image crop FALSE http://edamontology.org/operation_Image_processing operation__Rhb4iyLUQWY4HnhPpuqNNI 86 | http://edamontology.org/operation__RLtOI0poPsYRHzgXbAcr2E Affine registration Affine image registration FALSE http://edamontology.org/operation_Image_registration operation__RLtOI0poPsYRHzgXbAcr2E Affine image registration 87 | http://edamontology.org/operation__RyCFuPLOeGxpcGjYbWcWWD Isolated object classification FALSE http://edamontology.org/operation_2990|http://edamontology.org/operation_3443 operation__RyCFuPLOeGxpcGjYbWcWWD 88 | http://edamontology.org/operation_0004 Operation Function|Computational procedure|Computational subroutine|Computational operation|Function (programming)|Lambda abstraction|Mathematical function|Mathematical operation|Computational method|Computational tool|sumo:Function|Process "A function that processes a set of inputs and results in a set of outputs, or associates arguments (inputs) with values (outputs).|Special cases are: a) An operation that consumes no input (has no input arguments). Such operation is either a constant function, or an operation depending only on the underlying state. b) An operation that may modify the underlying state but has no output. c) The singular-case operation with no input or output, that still may modify the underlying state." FALSE http://www.w3.org/2002/07/owl#Thing beta12orEarlier operation_0004 Function "A function that processes a set of inputs and results in a set of outputs, or associates arguments (inputs) with values (outputs)." Computational procedure|Computational subroutine|Computational operation|Function (programming)|Lambda abstraction|Mathematical function|Mathematical operation|Computational method Computational tool|sumo:Function|Process http://purl.obolibrary.org/obo/edam#edam|http://purl.obolibrary.org/obo/edam#operations 89 | http://edamontology.org/operation_0337 Visualisation Plotting FALSE http://edamontology.org/operation_0004 operation_0337 Plotting 90 | http://edamontology.org/operation_2409 Data handling FALSE http://edamontology.org/operation_0004 operation_2409 91 | http://edamontology.org/operation_2423 Prediction and recognition FALSE http://edamontology.org/operation_0004 operation_2423 92 | http://edamontology.org/operation_2928 Alignment construction FALSE http://edamontology.org/operation_0004 operation_2928 93 | http://edamontology.org/operation_2990 Classification FALSE http://edamontology.org/operation_0004 operation_2990 94 | http://edamontology.org/operation_3096 Editing FALSE http://edamontology.org/operation_2409 operation_3096 95 | http://edamontology.org/operation_3429 Generation FALSE http://edamontology.org/operation_0004 operation_3429 96 | http://edamontology.org/operation_3434 Conversion FALSE http://edamontology.org/operation_0004 operation_3434 97 | http://edamontology.org/operation_3441 Plotting "Visualisation vs Plotting vs Image generation 98 | Should these be merged? 99 | Which of these should be the top concept, and which sub-concepts, and which narrow synonyms?" FALSE http://edamontology.org/operation_0337 operation_3441 100 | http://edamontology.org/operation_3443 Image analysis General image analysis FALSE http://edamontology.org/operation__RCeFsUcF68YcEyw6iWxw2le operation_3443 General image analysis 101 | http://edamontology.org/operation_Active_contours Active contours "ToDo: relation of this to ""Contours"" ?" FALSE http://edamontology.org/operation_Image_segmentation operation_Active_contours 102 | http://edamontology.org/operation_Adaptative_thresholding Adaptative thresholding FALSE http://edamontology.org/operation_Image_segmentation operation_Adaptative_thresholding 103 | http://edamontology.org/operation_Anaglyph Anaglyph FALSE http://edamontology.org/operation_Image_visualisation operation_Anaglyph 104 | http://edamontology.org/operation_Cell_counting Object counting FALSE http://edamontology.org/operation_3443 operation_Cell_counting 105 | http://edamontology.org/operation_Cell_segmentation Cell segmentation FALSE http://edamontology.org/operation_Image_segmentation operation_Cell_segmentation 106 | http://edamontology.org/operation_Cell_tracking Cell tracking FALSE http://edamontology.org/operation__RDsrmC9l0bZw9kGJzGMCyY8 operation_Cell_tracking 107 | http://edamontology.org/operation_Closing Closing FALSE http://edamontology.org/operation_Morphological_operations operation_Closing 108 | http://edamontology.org/operation_Contours operation_Contours Contours "ToDo: relation of this to ""Active contours"" ?" FALSE http://edamontology.org/operation_Image_segmentation operation_Contours Contours 109 | http://edamontology.org/operation_Dilation Dilatation FALSE http://edamontology.org/operation_Morphological_operations operation_Dilation 110 | http://edamontology.org/operation_Distance_transform Distance transform FALSE http://edamontology.org/operation_Morphological_operations operation_Distance_transform 111 | http://edamontology.org/operation_Edge_detection Edge enhancement Edge detection FALSE http://edamontology.org/operation_Image_segmentation|http://edamontology.org/operation_Image_enhancement operation_Edge_detection Edge detection 112 | http://edamontology.org/operation_Erosion Erosion FALSE http://edamontology.org/operation_Morphological_operations operation_Erosion 113 | http://edamontology.org/operation_Feature_extraction Object feature extraction Feature detection|Image labeling|SURF FALSE http://edamontology.org/operation_3443 operation_Feature_extraction Feature detection|Image labeling SURF 114 | http://edamontology.org/operation_Geometrical_transform Geometrical transform FALSE http://edamontology.org/operation_Image_processing operation_Geometrical_transform 115 | http://edamontology.org/operation_Homogeneity Homogeneity FALSE http://edamontology.org/operation_Feature_extraction operation_Homogeneity 116 | http://edamontology.org/operation_Illumination_correction Illumination correction Flat field correction FALSE http://edamontology.org/operation__R7MFwdgojfmkZ07yWbdcda0 operation_Illumination_correction Flat field correction 117 | http://edamontology.org/operation_Image_classification Image classification Object classification|Classification|Image clustering FALSE http://edamontology.org/operation_2990|http://edamontology.org/operation_3443 operation_Image_classification Object classification|Classification Image clustering 118 | http://edamontology.org/operation_Image_colocalization Image co-allocation Image colocalisation|Manders coefficient FALSE http://edamontology.org/operation_3443 operation_Image_colocalization Image colocalisation Manders coefficient 119 | http://edamontology.org/operation_Image_deconvolution Image deconvolution FALSE http://edamontology.org/operation_Image_reconstruction operation_Image_deconvolution 120 | http://edamontology.org/operation_Image_enhancement Image enhancement Image filtering|Image restoration "Image enhancement moves further away from the ""reality"", as opposed to Image reconstruction that moves closer to the ""reality""." FALSE http://edamontology.org/operation_Image_processing operation_Image_enhancement Image filtering|Image restoration 121 | http://edamontology.org/operation_Image_measurement Image measurement FALSE http://edamontology.org/operation_Feature_extraction operation_Image_measurement 122 | http://edamontology.org/operation_Image_processing Image processing Image postprocessing FALSE http://edamontology.org/operation_0004 operation_Image_processing Image postprocessing 123 | http://edamontology.org/operation_Image_reconstruction Image reconstruction Image restoration "Image enhancement moves further away from the ""reality"", as opposed to Image reconstruction that moves closer to the ""reality""." FALSE http://edamontology.org/operation_Image_processing|http://edamontology.org/operation__RDFFD5jBfUw74a3vJeBAGB1 operation_Image_reconstruction Image restoration 124 | http://edamontology.org/operation_Image_registration Image registration Image alignment FALSE http://edamontology.org/operation_Image_processing|http://edamontology.org/operation_2928 operation_Image_registration Image alignment 125 | http://edamontology.org/operation_Image_segmentation Image segmentation Interactive segmentation|Snakes FALSE http://edamontology.org/operation_3443 operation_Image_segmentation Interactive segmentation|Snakes 126 | http://edamontology.org/operation_Image_smoothing Smoothing Gaussian filtering|Gaussian blurring|Gaussian smoothing|Blurring FALSE http://edamontology.org/operation_Image_enhancement operation_Image_smoothing Gaussian filtering|Gaussian blurring|Gaussian smoothing Blurring 127 | http://edamontology.org/operation_Image_stitching Image stitching FALSE http://edamontology.org/operation_Image_reconstruction operation_Image_stitching 128 | http://edamontology.org/operation_Image_thresholding Image thresholding Thresholding|Clustering-based image thresholding FALSE http://edamontology.org/operation_Image_segmentation operation_Image_thresholding Thresholding Clustering-based image thresholding 129 | http://edamontology.org/operation_Image_tracking Object tracking Tracking FALSE http://edamontology.org/operation_3443 operation_Image_tracking Tracking 130 | http://edamontology.org/operation_Image_visualisation Image visualisation Rendering|Lookup table "Visualisation vs Plotting vs Image generation 131 | Should these be merged? 132 | Which of these should be the top concept, and which sub-concepts, and which narrow synonyms?" FALSE http://edamontology.org/operation_0337 operation_Image_visualisation Rendering Lookup table 133 | http://edamontology.org/operation_Interactive_segmentation Interactive segmentation FALSE http://edamontology.org/operation_Image_segmentation operation_Interactive_segmentation 134 | http://edamontology.org/operation_Linear_transformation Linear transformation FALSE http://edamontology.org/operation__R8ANfLkuHu47r739AkhxrId operation_Linear_transformation 135 | http://edamontology.org/operation_Local_thresholding Local thresholding FALSE http://edamontology.org/operation_Image_segmentation operation_Local_thresholding 136 | http://edamontology.org/operation_Montage Montage FALSE http://edamontology.org/operation_Image_visualisation operation_Montage 137 | http://edamontology.org/operation_Morphological_operations Morphological operation Morphological image processing FALSE http://edamontology.org/operation_Image_processing operation_Morphological_operations Morphological image processing 138 | http://edamontology.org/operation_Neuron_image_analysis Neuron image analysis FALSE http://edamontology.org/operation_3443 operation_Neuron_image_analysis 139 | http://edamontology.org/operation_Object_detection Object detection FALSE http://edamontology.org/operation_3443 operation_Object_detection 140 | http://edamontology.org/operation_Opening Opening FALSE http://edamontology.org/operation_Morphological_operations operation_Opening 141 | http://edamontology.org/operation_Optical_flow_analysis Optical flow analysis FALSE http://edamontology.org/operation_3443 operation_Optical_flow_analysis 142 | http://edamontology.org/operation_Overlay Overlay FALSE http://edamontology.org/operation_Image_visualisation operation_Overlay 143 | http://edamontology.org/operation_Particle_extraction Particle extraction FALSE http://edamontology.org/operation_Feature_extraction operation_Particle_extraction 144 | http://edamontology.org/operation_Particle_tracking Particle tracking FALSE http://edamontology.org/operation__RDsrmC9l0bZw9kGJzGMCyY8 operation_Particle_tracking 145 | http://edamontology.org/operation_Pixel_classification Pixel classification FALSE http://edamontology.org/operation_Image_segmentation|http://edamontology.org/operation_2990|http://edamontology.org/operation_3443 operation_Pixel_classification 146 | http://edamontology.org/operation_Projection Image projection Minimum projection|Maximum projection|Maximum intensity projection|Mean projection FALSE http://edamontology.org/operation_Image_reconstruction operation_Projection Minimum projection|Maximum projection Maximum intensity projection|Mean projection 147 | http://edamontology.org/operation_Rotation Rotation FALSE http://edamontology.org/operation__R8ANfLkuHu47r739AkhxrId operation_Rotation 148 | http://edamontology.org/operation_Shape_features Shape features FALSE http://edamontology.org/operation_Feature_extraction operation_Shape_features 149 | http://edamontology.org/operation_Skeletonization Skeletonisation Medial axis FALSE http://edamontology.org/operation_Morphological_operations operation_Skeletonization Medial axis 150 | http://edamontology.org/operation_Spot_extraction Spot extraction Spot detection FALSE http://edamontology.org/operation_Feature_extraction operation_Spot_extraction Spot detection 151 | http://edamontology.org/operation_Texture_extraction Texture extraction Inverse Difference Moment FALSE http://edamontology.org/operation_Feature_extraction operation_Texture_extraction Inverse Difference Moment 152 | http://edamontology.org/operation_Texture_features Texture features FALSE http://edamontology.org/operation_Feature_extraction operation_Texture_features 153 | http://edamontology.org/operation_Volume_rendering Volume rendering FALSE http://edamontology.org/operation_Image_visualisation operation_Volume_rendering 154 | http://edamontology.org/operation_Warping Warping FALSE http://edamontology.org/operation_Geometrical_transform operation_Warping 155 | http://edamontology.org/operation_Watershed Watershed FALSE http://edamontology.org/operation_Image_segmentation operation_Watershed 156 | http://edamontology.org/topic__R77vfEkRqjIenYUqhDPvdkM Cryo fixation FALSE http://edamontology.org/topic__ReQzVVVh0IPyN0c1V5wQVO topic__R77vfEkRqjIenYUqhDPvdkM 157 | http://edamontology.org/topic__R7LElbFkBgKS401YKsVtNck Transmission electron microscopy FALSE http://edamontology.org/topic_0611 topic__R7LElbFkBgKS401YKsVtNck 158 | http://edamontology.org/topic__R7Vn7GbwtqVvGWNAMGdcNW1 Point-scanning microscopy FALSE http://edamontology.org/topic_3385 topic__R7Vn7GbwtqVvGWNAMGdcNW1 159 | http://edamontology.org/topic__R7WRbf9Y8ySw9QWPwAjzcUa In-vitro imaging FALSE http://edamontology.org/topic__RL4rPCXlIu9uzNrGcbcSNp topic__R7WRbf9Y8ySw9QWPwAjzcUa 160 | http://edamontology.org/topic__R89wYXZ2735GXdn4m4GOT9n Dark field microscopy FALSE http://edamontology.org/topic__R9P5gEAm1wic4R2PcZ7ZpPA topic__R89wYXZ2735GXdn4m4GOT9n 161 | http://edamontology.org/topic__R8nlu8VCuL5nvBFgOaGNHgT Polarized light microscopy FALSE http://edamontology.org/topic__R9P5gEAm1wic4R2PcZ7ZpPA topic__R8nlu8VCuL5nvBFgOaGNHgT 162 | http://edamontology.org/topic__R8oQpUEjKZjNQCTB4x3JQuJ Single molecule localization microscopy FALSE http://edamontology.org/topic_Super-resolution_microscopy topic__R8oQpUEjKZjNQCTB4x3JQuJ 163 | http://edamontology.org/topic__R8Ss4wIFt90wZ1yjFLfXyPM Correlative Light and Electron Microscopy CLEM FALSE http://edamontology.org/topic_Microscopy topic__R8Ss4wIFt90wZ1yjFLfXyPM CLEM 164 | http://edamontology.org/topic__R8XUtD89JCyeUaaVebe9Mkw In-vivo imaging FALSE http://edamontology.org/topic__RL4rPCXlIu9uzNrGcbcSNp topic__R8XUtD89JCyeUaaVebe9Mkw 165 | http://edamontology.org/topic__R96toeNl9iMp8oqv9augU84 In-silico reconstruction Morphological reconstruction|3D reconstruction FALSE http://edamontology.org/topic_0003 topic__R96toeNl9iMp8oqv9augU84 Morphological reconstruction|3D reconstruction 166 | http://edamontology.org/topic__R9BRNdBzbmc9zAnc5qpx5Kp Sample FALSE http://edamontology.org/topic_0003 topic__R9BRNdBzbmc9zAnc5qpx5Kp 167 | http://edamontology.org/topic__R9Cmje2ZUXyDW6aQAvFhwSM Confocal microscopy FALSE http://edamontology.org/topic__R7Vn7GbwtqVvGWNAMGdcNW1 topic__R9Cmje2ZUXyDW6aQAvFhwSM 168 | http://edamontology.org/topic__R9O3HmIAjoN5IqXXXRukzzr Electron tomography FALSE http://edamontology.org/topic__R7LElbFkBgKS401YKsVtNck topic__R9O3HmIAjoN5IqXXXRukzzr 169 | http://edamontology.org/topic__R9P5gEAm1wic4R2PcZ7ZpPA Transmission light microscopy FALSE http://edamontology.org/topic_3385 topic__R9P5gEAm1wic4R2PcZ7ZpPA 170 | http://edamontology.org/topic__R9PtYz3fOHhRsnKnQzFIXff Critical-point drying FALSE http://edamontology.org/topic__ReQzVVVh0IPyN0c1V5wQVO topic__R9PtYz3fOHhRsnKnQzFIXff 171 | http://edamontology.org/topic__R9WwNqEL8rvkyBPk7GkDTYh Photoacoustic tomography PAT FALSE http://edamontology.org/topic_3452 topic__R9WwNqEL8rvkyBPk7GkDTYh PAT 172 | http://edamontology.org/topic__R9zg34pnGmTyzPidJj9vfJt Focused ion beam scanning electron microscopy FIB-SEM FALSE http://edamontology.org/topic__RBZsLMTdyuEDtVe2fge61l0 topic__R9zg34pnGmTyzPidJj9vfJt FIB-SEM 173 | http://edamontology.org/topic__RB4unXFUWvdBe91ihVAA9rR Ex-vivo imaging FALSE http://edamontology.org/topic__RL4rPCXlIu9uzNrGcbcSNp topic__RB4unXFUWvdBe91ihVAA9rR 174 | http://edamontology.org/topic__RBDp7HwdUBEjpS6PRjYfV2V Bioimage informatics FALSE http://edamontology.org/topic_0003 topic__RBDp7HwdUBEjpS6PRjYfV2V 175 | http://edamontology.org/topic__RBfI2XgIsxcfKonPPluKAhK Spectroscopy FALSE http://edamontology.org/topic_3382 topic__RBfI2XgIsxcfKonPPluKAhK 176 | http://edamontology.org/topic__RBHw300pzIYcttGsAmIZvk5 Ultrasonography FALSE http://edamontology.org/topic_3382 topic__RBHw300pzIYcttGsAmIZvk5 177 | http://edamontology.org/topic__RBKlmE9DGTZwEwxw0juThGg Multi-photon microscopy FALSE http://edamontology.org/topic__R7Vn7GbwtqVvGWNAMGdcNW1 topic__RBKlmE9DGTZwEwxw0juThGg 178 | http://edamontology.org/topic__RBkRgSi7js0c70kjiPgYTgR Single-photon emission computed tomography SPECT FALSE http://edamontology.org/topic_3452 topic__RBkRgSi7js0c70kjiPgYTgR SPECT 179 | http://edamontology.org/topic__RbM6PZFI9i5lG4gzAySn0c Freeze fracturing FALSE http://edamontology.org/topic__ReQzVVVh0IPyN0c1V5wQVO topic__RbM6PZFI9i5lG4gzAySn0c 180 | http://edamontology.org/topic__RBNfUSYBOKUapWrsyPMMTkw Cryo scanning electron microscopy Cryo SEM FALSE http://edamontology.org/topic__RBZsLMTdyuEDtVe2fge61l0 topic__RBNfUSYBOKUapWrsyPMMTkw Cryo SEM 181 | http://edamontology.org/topic__RBNoPZIOvBhdWGe8mFNpoWQ Fixed sample imaging FALSE http://edamontology.org/topic_3382 topic__RBNoPZIOvBhdWGe8mFNpoWQ 182 | http://edamontology.org/topic__RBsSZve5PnQFO3scMDWo9f0 Area-capturing microscopy FALSE http://edamontology.org/topic_3385 topic__RBsSZve5PnQFO3scMDWo9f0 183 | http://edamontology.org/topic__RByvmgDpAo4FOrMdvTm1gwR Serial block-face scanning electron microscopy FALSE http://edamontology.org/topic__RBZsLMTdyuEDtVe2fge61l0 topic__RByvmgDpAo4FOrMdvTm1gwR 184 | http://edamontology.org/topic__RBZsLMTdyuEDtVe2fge61l0 Scanning electron microscopy FALSE http://edamontology.org/topic_0611 topic__RBZsLMTdyuEDtVe2fge61l0 185 | http://edamontology.org/topic__RC91JqkkQnsmvg8zuG6Td7q Structured illumination microscopy FALSE http://edamontology.org/topic_Super-resolution_microscopy topic__RC91JqkkQnsmvg8zuG6Td7q 186 | http://edamontology.org/topic__RDCjx86atJP685sX1zrE2ia Cryo electron tomography FALSE http://edamontology.org/topic__R9O3HmIAjoN5IqXXXRukzzr topic__RDCjx86atJP685sX1zrE2ia 187 | http://edamontology.org/topic__RDdX0TswBVhmWiS1dI3pghN Bright field microscopy FALSE http://edamontology.org/topic__R9P5gEAm1wic4R2PcZ7ZpPA topic__RDdX0TswBVhmWiS1dI3pghN 188 | http://edamontology.org/topic__RDos3h5yRfjhLUcOImDOFgB Positron emission tomography PET scan FALSE http://edamontology.org/topic_3452 topic__RDos3h5yRfjhLUcOImDOFgB PET scan 189 | http://edamontology.org/topic__RDvZSyRAcr8fonKvKdVoXw2 Bioluminescence imaging FALSE http://edamontology.org/topic_3382 topic__RDvZSyRAcr8fonKvKdVoXw2 190 | http://edamontology.org/topic__ReQzVVVh0IPyN0c1V5wQVO Sample preparation FALSE http://edamontology.org/topic_0003 topic__ReQzVVVh0IPyN0c1V5wQVO 191 | http://edamontology.org/topic__RkSYwMcVWG5FCi4BaWDMaJ High-pressure freezing FALSE http://edamontology.org/topic__R77vfEkRqjIenYUqhDPvdkM topic__RkSYwMcVWG5FCi4BaWDMaJ 192 | http://edamontology.org/topic__RL4rPCXlIu9uzNrGcbcSNp Live sample imaging FALSE http://edamontology.org/topic_3382 topic__RL4rPCXlIu9uzNrGcbcSNp 193 | http://edamontology.org/topic__RMCSMqSNvOTurvW2FV8tjN Stimulated Emission Depletion microscopy FALSE http://edamontology.org/topic_Super-resolution_microscopy topic__RMCSMqSNvOTurvW2FV8tjN 194 | http://edamontology.org/topic__RMctC69gGv9qYqwKCXxeLF Plunge freezing FALSE http://edamontology.org/topic__R77vfEkRqjIenYUqhDPvdkM topic__RMctC69gGv9qYqwKCXxeLF 195 | http://edamontology.org/topic__Rn8MnorStmqIkNlAVZWBc0 Confocal fluorescence microscopy FALSE http://edamontology.org/topic_Fluorescent_microscopy|http://edamontology.org/topic__R9Cmje2ZUXyDW6aQAvFhwSM topic__Rn8MnorStmqIkNlAVZWBc0 196 | http://edamontology.org/topic__RNFOzq5E0ZVBh5Euhn06rn DIC microscopy FALSE http://edamontology.org/topic__R9P5gEAm1wic4R2PcZ7ZpPA topic__RNFOzq5E0ZVBh5Euhn06rn 197 | http://edamontology.org/topic__RtBCcu7zJiS0phrbR2HzAI Phase contrast microscopy FALSE http://edamontology.org/topic__R9P5gEAm1wic4R2PcZ7ZpPA topic__RtBCcu7zJiS0phrbR2HzAI 198 | http://edamontology.org/topic__RwTXNChEQ9hv7IpvHjQGin Data sharing FALSE http://edamontology.org/topic_0003 topic__RwTXNChEQ9hv7IpvHjQGin 199 | http://edamontology.org/topic__RxfmHE99gOkUOOML5krfsJ Computerized tomography CT FALSE http://edamontology.org/topic_3452 topic__RxfmHE99gOkUOOML5krfsJ CT 200 | http://edamontology.org/topic__RXLeVr0cHSXzTSRyO5zwZD Scanning transmission electron microscopy FALSE http://edamontology.org/topic__R7LElbFkBgKS401YKsVtNck topic__RXLeVr0cHSXzTSRyO5zwZD 201 | http://edamontology.org/topic_0003 Topic sumo:FieldOfStudy "A category denoting a rather broad domain or field of interest, of study, application, work, data, or technology. Topics have no clearly defined borders between each other." FALSE http://www.w3.org/2002/07/owl#Thing beta12orEarlier topic_0003 "A category denoting a rather broad domain or field of interest, of study, application, work, data, or technology. Topics have no clearly defined borders between each other." sumo:FieldOfStudy http://purl.obolibrary.org/obo/edam#edam|http://purl.obolibrary.org/obo/edam#topics 202 | http://edamontology.org/topic_0593 Nuclear magnetic resonance spectroscopy NMR FALSE http://edamontology.org/topic__RBfI2XgIsxcfKonPPluKAhK topic_0593 NMR 203 | http://edamontology.org/topic_0611 Electron microscopy FALSE http://edamontology.org/topic_Microscopy topic_0611 204 | http://edamontology.org/topic_3382 Imaging FALSE http://edamontology.org/topic_0003 topic_3382 205 | http://edamontology.org/topic_3385 Light microscopy Fluorescence recovery after photobleaching|Frap|Brightfield FALSE http://edamontology.org/topic_Microscopy topic_3385 Fluorescence recovery after photobleaching|Frap|Brightfield 206 | http://edamontology.org/topic_3444 Magnetic resonance imaging MRI FALSE http://edamontology.org/topic_3382 topic_3444 MRI 207 | http://edamontology.org/topic_3452 Tomography FALSE http://edamontology.org/topic_3382 topic_3452 208 | http://edamontology.org/topic_3474 Machine learning FALSE http://edamontology.org/topic_0003 topic_3474 209 | http://edamontology.org/topic_Digital_histology Digital histology FALSE http://edamontology.org/topic_0003 topic_Digital_histology 210 | http://edamontology.org/topic_Fluorescent_microscopy Fluorescent microscopy FALSE http://edamontology.org/topic_3385 topic_Fluorescent_microscopy 211 | http://edamontology.org/topic_High_content_screening High content screening hcs FALSE http://edamontology.org/topic_0003 topic_High_content_screening hcs 212 | http://edamontology.org/topic_Light-sheet_microscopy Light-sheet microscopy Spim FALSE http://edamontology.org/topic__RBsSZve5PnQFO3scMDWo9f0|http://edamontology.org/topic__R7Vn7GbwtqVvGWNAMGdcNW1 topic_Light-sheet_microscopy Spim 213 | http://edamontology.org/topic_Microscopy Microscopy Slide scanner FALSE http://edamontology.org/topic_3382 topic_Microscopy Slide scanner 214 | http://edamontology.org/topic_Statistics Statistics FALSE http://edamontology.org/topic_0003 topic_Statistics 215 | http://edamontology.org/topic_Super-resolution_microscopy Super-resolution microscopy palm|Photoactivated localization microscopy FALSE http://edamontology.org/topic_Fluorescent_microscopy topic_Super-resolution_microscopy palm|Photoactivated localization microscopy 216 | http://edamontology.org/topic_Widefield_microscopy Widefield microscopy FALSE http://edamontology.org/topic_3385|http://edamontology.org/topic__RBsSZve5PnQFO3scMDWo9f0 topic_Widefield_microscopy 217 | -------------------------------------------------------------------------------- /releases/EDAM-bioimaging_alpha03.csv: -------------------------------------------------------------------------------- 1 | Class ID,Preferred Label,Synonyms,Definitions,Obsolete,CUI,Semantic Types,Parents,Citation,Created in,Documentation,Example,File extension,has format,has function,has identifier,has input,has output,has topic,Hide in subset,http://data.bioontology.org/metadata/prefixIRI,http://edamontology.org/next_id,http://edamontology.org/noClue,http://purl.obolibrary.org/obo/date,http://purl.obolibrary.org/obo/default-relationship-id-prefix,http://purl.obolibrary.org/obo/edam#data,http://purl.obolibrary.org/obo/edam#edam,http://purl.obolibrary.org/obo/edam#events,http://purl.obolibrary.org/obo/edam#formats,http://purl.obolibrary.org/obo/edam#identifiers,http://purl.obolibrary.org/obo/edam#obsolete,http://purl.obolibrary.org/obo/edam#operations,http://purl.obolibrary.org/obo/edam#topics,http://purl.obolibrary.org/obo/idspace,http://purl.obolibrary.org/obo/is_anti_symmetric,http://purl.obolibrary.org/obo/is_metadata_tag,http://purl.obolibrary.org/obo/is_reflexive,http://purl.obolibrary.org/obo/is_symmetric,http://purl.obolibrary.org/obo/namespace,http://purl.obolibrary.org/obo/remark,http://purl.obolibrary.org/obo/transitive_over,http://purl.org/dc/elements/1.1/contributor,http://purl.org/dc/elements/1.1/creator,http://purl.org/dc/elements/1.1/format,http://purl.org/dc/elements/1.1/title,http://usefulinc.com/ns/doap#Version,http://www.geneontology.org/formats/oboInOwl#consider,http://www.geneontology.org/formats/oboInOwl#hasAlternativeId,http://www.geneontology.org/formats/oboInOwl#hasBroadSynonym,http://www.geneontology.org/formats/oboInOwl#hasDbXref,http://www.geneontology.org/formats/oboInOwl#hasDefinition,http://www.geneontology.org/formats/oboInOwl#hasExactSynonym,http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym,http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym,http://www.geneontology.org/formats/oboInOwl#hasSubset,http://www.geneontology.org/formats/oboInOwl#inSubset,http://www.geneontology.org/formats/oboInOwl#isCyclic,http://www.geneontology.org/formats/oboInOwl#replacedBy,http://www.geneontology.org/formats/oboInOwl#savedBy,http://www.geneontology.org/formats/oboInOwl#SubsetProperty,http://xmlns.com/foaf/0.1/page,is format of,is function of,is identifier of,is input of,is output of,is topic of,isdebtag,Media type,Obsolete since,Regular expression,Related term 2 | http://edamontology.org/data__R0uFIvsA9tQJYZz8NM3Smk,Multi-channel image,,,FALSE,,,http://edamontology.org/data_Image,,,,,,,,,,,,,data__R0uFIvsA9tQJYZz8NM3Smk,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bioimaging|data|edam,,,,,,,,,,,,,,,, 3 | http://edamontology.org/data__R7sy3JByrUsyKaGNYQ1eSQF,Temporal properties,,,FALSE,,,http://edamontology.org/data__R80aNLt4YY02ByptWQa2yrY,,,,,,,,,,,,,data__R7sy3JByrUsyKaGNYQ1eSQF,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bioimaging|data|edam,,,,,,,,,,,,,,,, 4 | http://edamontology.org/data__R7Vdp7H5PzNJiqA7JaEEPrJ,Image radiometric noise characteristics,,,FALSE,,,http://edamontology.org/data__RDr5D5pOVdnB8hASL1LG8HH,,,,,,,,,,,,,data__R7Vdp7H5PzNJiqA7JaEEPrJ,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bioimaging|data|edam,,,,,,,,,,,,,,,, 5 | http://edamontology.org/data__R7Xr4YLUfGpHoI3FnAzgMnA,Spatial properties,,,FALSE,,,http://edamontology.org/data__R80aNLt4YY02ByptWQa2yrY,,,,,,,,,,,,,data__R7Xr4YLUfGpHoI3FnAzgMnA,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bioimaging|data|edam,,,,,,,,,,,,,,,, 6 | http://edamontology.org/data__R80aNLt4YY02ByptWQa2yrY,Image characteristics,Image metadata,,FALSE,,,http://edamontology.org/data_0006,,,,,,,,,,,,,data__R80aNLt4YY02ByptWQa2yrY,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Image metadata,,,bioimaging|data|edam,,,,,,,,,,,,,,,, 7 | http://edamontology.org/data__R9P4sScuriz9yN8l827hrLo,Object velocity,Object speed,,FALSE,,,http://edamontology.org/data__Rj7rpnkJ6SPPwWkQ4x3Wik,,,,,,,,,,,,,data__R9P4sScuriz9yN8l827hrLo,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Object speed,,,,bioimaging|data|edam,,,,,,,,,,,,,,,, 8 | http://edamontology.org/data__R9yc0jq1eJBgmvEQwMcRSUS,Spatial image resolution,,,FALSE,,,http://edamontology.org/data__R7Xr4YLUfGpHoI3FnAzgMnA,,,,,,,,,,,,,data__R9yc0jq1eJBgmvEQwMcRSUS,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bioimaging|data|edam,,,,,,,,,,,,,,,, 9 | http://edamontology.org/data__RCDMkOl5gzD23OFsPf6vr4a,Spectral properties,,,FALSE,,,http://edamontology.org/data__R80aNLt4YY02ByptWQa2yrY,,,,,,,,,,,,,data__RCDMkOl5gzD23OFsPf6vr4a,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bioimaging|data|edam,,,,,,,,,,,,,,,, 10 | http://edamontology.org/data__RCjZhkavxxifpvdNiasVVCc,Radiometric properties,,,FALSE,,,http://edamontology.org/data__R80aNLt4YY02ByptWQa2yrY,,,,,,,,,,,,,data__RCjZhkavxxifpvdNiasVVCc,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bioimaging|data|edam,,,,,,,,,,,,,,,, 11 | http://edamontology.org/data__RCMgLYJyn9WJyCc3bA23xT1,Image time series,Time-series image|Movie|Time-lapse image|Video sequence,,FALSE,,,http://edamontology.org/data_Image|http://edamontology.org/data_Time-lapse_data,,,,,,,,,,,,,data__RCMgLYJyn9WJyCc3bA23xT1,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Time-series image,Movie|Time-lapse image|Video sequence,,,bioimaging|data|edam,,,,,,,,,,,,,,,, 12 | http://edamontology.org/data__RCOwaNKaK3gFcUhkjBq7aor,Image data,Image,"So far consensus: Primary term Image data, exact synonym Image, meaning image or a set of (related) images (forming e.g. a stack or a time-lapse). No synonyms for stacks and ""movies"", these should be specialised concepts.",FALSE,,,http://edamontology.org/data_0006,,,,,,,,,,,,,data__RCOwaNKaK3gFcUhkjBq7aor,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Image,,,,bioimaging|data|edam,,,,,,,,,,,,,,,, 13 | http://edamontology.org/data__RCRp3XI62rYeU9aZHw4yBvj,Region properties,,,FALSE,,,http://edamontology.org/data_0006,,,,,,,,,,,,,data__RCRp3XI62rYeU9aZHw4yBvj,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bioimaging|data|edam,,,,,,,,,,,,,,,, 14 | http://edamontology.org/data__RDcwcMJia2DgGNXx2JKa8Oc,Image bit depth,,,FALSE,,,http://edamontology.org/data_Image_geometry,,,,,,,,,,,,,data__RDcwcMJia2DgGNXx2JKa8Oc,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bioimaging|data|edam,,,,,,,,,,,,,,,, 15 | http://edamontology.org/data__RDLZjniM2p9bxNi1Md2Vqv3,Spectral image resolution,,,FALSE,,,http://edamontology.org/data__RCDMkOl5gzD23OFsPf6vr4a,,,,,,,,,,,,,data__RDLZjniM2p9bxNi1Md2Vqv3,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bioimaging|data|edam,,,,,,,,,,,,,,,, 16 | http://edamontology.org/data__RDr5D5pOVdnB8hASL1LG8HH,Image radiometric noise,,,FALSE,,,http://edamontology.org/data__RCjZhkavxxifpvdNiasVVCc,,,,,,,,,,,,,data__RDr5D5pOVdnB8hASL1LG8HH,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bioimaging|data|edam,,,,,,,,,,,,,,,, 17 | http://edamontology.org/data__RDz7WLs6GBWl7rPjqfjKBT0,Region texture,,,FALSE,,,http://edamontology.org/data__RCRp3XI62rYeU9aZHw4yBvj,,,,,,,,,,,,,data__RDz7WLs6GBWl7rPjqfjKBT0,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bioimaging|data|edam,,,,,,,,,,,,,,,, 18 | http://edamontology.org/data__Rj7rpnkJ6SPPwWkQ4x3Wik,Object characteristics,Object data|Object feature|Object measurement,,FALSE,,,http://edamontology.org/data_0006,,,,,,,,,,,,,data__Rj7rpnkJ6SPPwWkQ4x3Wik,,,,,,,,,,,,,,,,,,,,,,,,,,,,Object data,,,Object feature,Object measurement,,,bioimaging|data|edam,,,,,,,,,,,,,,,, 19 | http://edamontology.org/data__RPhipiN98zgq3wqXj4ESkT,Object shape,,,FALSE,,,http://edamontology.org/data__Rj7rpnkJ6SPPwWkQ4x3Wik,,,,,,,,,,,,,data__RPhipiN98zgq3wqXj4ESkT,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bioimaging|data|edam,,,,,,,,,,,,,,,, 20 | http://edamontology.org/data_0006,Data,Data record|Data set|Datum,"Information, represented in an information artefact (data record) that is 'understandable' by dedicated computational tools that can use the data as input or produce it as output.",FALSE,,,http://www.w3.org/2002/07/owl#Thing,,beta12orEarlier,,,,,,,,,,,data_0006,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,"Information, represented in an information artefact (data record) that is 'understandable' by dedicated computational tools that can use the data as input or produce it as output.",Data record,Data set|Datum,,,navigation|http://purl.obolibrary.org/obo/edam#edam|http://purl.obolibrary.org/obo/edam#data|http://purl.obolibrary.org/obo/edam#bioimaging,,,,,,,,,,,,,,,, 21 | http://edamontology.org/data_1D_dataset,1D image,,,FALSE,,,http://edamontology.org/data_Image_geometry,,,,,,,,,,,,,data_1D_dataset,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bioimaging|data|edam,,,,,,,,,,,,,,,, 22 | http://edamontology.org/data_2D_dataset,2D image,,,FALSE,,,http://edamontology.org/data_Image_geometry|http://edamontology.org/data_Image,,,,,,,,,,,,,data_2D_dataset,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bioimaging|data|edam,,,,,,,,,,,,,,,, 23 | http://edamontology.org/data_3D_dataset,3D image,Image stack,,FALSE,,,http://edamontology.org/data_Image_geometry|http://edamontology.org/data_Image,,,,,,,,,,,,,data_3D_dataset,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Image stack,,bioimaging|data|edam,,,,,,,,,,,,,,,, 24 | http://edamontology.org/data_4D_dataset,nD image,,,FALSE,,,http://edamontology.org/data_Image_geometry,,,,,,,,,,,,,data_4D_dataset,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bioimaging|data|edam,,,,,,,,,,,,,,,, 25 | http://edamontology.org/data_Colour,Colour,rgb|channel,,FALSE,,,http://edamontology.org/data__RCDMkOl5gzD23OFsPf6vr4a,,,,,,,,,,,,,data_Colour,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,rgb|channel,,,bioimaging|data|edam,,,,,,,,,,,,,,,, 26 | http://edamontology.org/data_Greyscale,Greyscale,,,FALSE,,,http://edamontology.org/data__RCDMkOl5gzD23OFsPf6vr4a,,,,,,,,,,,,,data_Greyscale,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bioimaging|data|edam,,,,,,,,,,,,,,,, 27 | http://edamontology.org/data_Image,Image,Image data|Image set|Set of images,,FALSE,,,http://edamontology.org/data_0006,,,,,,,,,,,,,data_Image,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Image data,Image set|Set of images,,,bioimaging|data|edam,,,,,,,,,,,,,,,, 28 | http://edamontology.org/data_Image_geometry,Image data properties,,,FALSE,,,http://edamontology.org/data__R80aNLt4YY02ByptWQa2yrY,,,,,,,,,,,,,data_Image_geometry,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bioimaging|data|edam,,,,,,,,,,,,,,,, 29 | http://edamontology.org/data_Image_histogram,Image histogram,,,FALSE,,,http://edamontology.org/data_0006,,,,,,,,,,,,,data_Image_histogram,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bioimaging|data|edam,,,,,,,,,,,,,,,, 30 | http://edamontology.org/data_Intensity,Intensity,,,FALSE,,,http://edamontology.org/data__RCjZhkavxxifpvdNiasVVCc,,,,,,,,,,,,,data_Intensity,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bioimaging|data|edam,,,,,,,,,,,,,,,, 31 | http://edamontology.org/data_Time,Time,,,FALSE,,,http://edamontology.org/data__R7sy3JByrUsyKaGNYQ1eSQF,,,,,,,,,,,,,data_Time,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bioimaging|data|edam,,,,,,,,,,,,,,,, 32 | http://edamontology.org/data_Time-lapse_data,Time-lapse data,,,FALSE,,,http://edamontology.org/data__R7sy3JByrUsyKaGNYQ1eSQF,,,,,,,,,,,,,data_Time-lapse_data,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bioimaging|data|edam,,,,,,,,,,,,,,,, 33 | http://edamontology.org/data_Trajectory,Object trajectory,,,FALSE,,,http://edamontology.org/data__Rj7rpnkJ6SPPwWkQ4x3Wik,,,,,,,,,,,,,data_Trajectory,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bioimaging|data|edam,,,,,,,,,,,,,,,, 34 | http://edamontology.org/data_Volume,Volume,,,FALSE,,,http://edamontology.org/data__R7Xr4YLUfGpHoI3FnAzgMnA,,,,,,,,,,,,,data_Volume,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bioimaging|data|edam,,,,,,,,,,,,,,,, 35 | http://edamontology.org/format_1915,Format,Data model|File format,,FALSE,,,http://www.w3.org/2002/07/owl#Thing,,,,,,,,,,,,,format_1915,,,,,,,,,,,,,,,,,,,,,,,,,,,,Data model,,,,File format,,,navigation|bioimaging|formats|edam,,,,,,,,,,,,,,,, 36 | http://edamontology.org/format_avi,avi,.avi,,FALSE,,,http://edamontology.org/format_1915,,,,,,,,,,,,,format_avi,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,.avi,,,,bioimaging|formats|edam,,,,,,,,,,,,,,,, 37 | http://edamontology.org/format_Binary_format,Binary format,,,FALSE,,,http://edamontology.org/format_1915,,,,,,,,,,,,,format_Binary_format,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bioimaging|formats|edam,,,,,,,,,,,,,,,, 38 | http://edamontology.org/format_csv,csv,,,FALSE,,,http://edamontology.org/format_1915,,,,,,,,,,,,,format_csv,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bioimaging|formats|edam,,,,,,,,,,,,,,,, 39 | http://edamontology.org/format_dat,dat,.dat,,FALSE,,,http://edamontology.org/format_1915,,,,,,,,,,,,,format_dat,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,.dat,,,,bioimaging|formats|edam,,,,,,,,,,,,,,,, 40 | http://edamontology.org/format_hdf5,hdf5,,,FALSE,,,http://edamontology.org/format_1915,,,,,,,,,,,,,format_hdf5,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bioimaging|formats|edam,,,,,,,,,,,,,,,, 41 | http://edamontology.org/format_hdr,hdr,.hdr,,FALSE,,,http://edamontology.org/format_1915,,,,,,,,,,,,,format_hdr,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,.hdr,,,,bioimaging|formats|edam,,,,,,,,,,,,,,,, 42 | http://edamontology.org/format_img,img,.img,,FALSE,,,http://edamontology.org/format_1915,,,,,,,,,,,,,format_img,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,.img,,,,bioimaging|formats|edam,,,,,,,,,,,,,,,, 43 | http://edamontology.org/format_ims,ims,.ims,,FALSE,,,http://edamontology.org/format_1915,,,,,,,,,,,,,format_ims,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,.ims,,,,bioimaging|formats|edam,,,,,,,,,,,,,,,, 44 | http://edamontology.org/format_ism,ism,,,FALSE,,,http://edamontology.org/format_1915,,,,,,,,,,,,,format_ism,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bioimaging|formats|edam,,,,,,,,,,,,,,,, 45 | http://edamontology.org/format_jpg,jpg,.jpg,,FALSE,,,http://edamontology.org/format_1915,,,,,,,,,,,,,format_jpg,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,.jpg,,,,bioimaging|formats|edam,,,,,,,,,,,,,,,, 46 | http://edamontology.org/format_mpeg,mpeg,,,FALSE,,,http://edamontology.org/format_1915,,,,,,,,,,,,,format_mpeg,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bioimaging|formats|edam,,,,,,,,,,,,,,,, 47 | http://edamontology.org/format_raw,raw,.raw,,FALSE,,,http://edamontology.org/format_1915,,,,,,,,,,,,,format_raw,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,.raw,,,,bioimaging|formats|edam,,,,,,,,,,,,,,,, 48 | http://edamontology.org/format_roi,Region of interest,ROI,,FALSE,,,http://edamontology.org/data_0006,,,,,,,,,,,,,format_roi,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,ROI,,,,bioimaging|formats|edam,,,,,,,,,,,,,,,, 49 | http://edamontology.org/format_scn,scn,.scn,,FALSE,,,http://edamontology.org/format_1915,,,,,,,,,,,,,format_scn,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,.scn,,,,bioimaging|formats|edam,,,,,,,,,,,,,,,, 50 | http://edamontology.org/format_sm2,sm2,.sm2,,FALSE,,,http://edamontology.org/format_1915,,,,,,,,,,,,,format_sm2,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,.sm2,,,,bioimaging|formats|edam,,,,,,,,,,,,,,,, 51 | http://edamontology.org/format_sm3,sm3,.sm3,,FALSE,,,http://edamontology.org/format_1915,,,,,,,,,,,,,format_sm3,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,.sm3,,,,bioimaging|formats|edam,,,,,,,,,,,,,,,, 52 | http://edamontology.org/format_stk,stk,.stk,,FALSE,,,http://edamontology.org/format_1915,,,,,,,,,,,,,format_stk,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,.stk,,,,bioimaging|formats|edam,,,,,,,,,,,,,,,, 53 | http://edamontology.org/format_tif,tif,,,FALSE,,,http://edamontology.org/format_1915,,,,,,,,,,,,,format_tif,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bioimaging|formats|edam,,,,,,,,,,,,,,,, 54 | http://edamontology.org/format_tiff,tiff,.tiff,,FALSE,,,http://edamontology.org/format_1915,,,,,,,,,,,,,format_tiff,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,.tiff,,,,bioimaging|formats|edam,,,,,,,,,,,,,,,, 55 | http://edamontology.org/format_txt,txt,.txt,,FALSE,,,http://edamontology.org/format_1915,,,,,,,,,,,,,format_txt,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,.txt,,,,bioimaging|formats|edam,,,,,,,,,,,,,,,, 56 | http://edamontology.org/format_vsi,vsi,.vsi,,FALSE,,,http://edamontology.org/format_1915,,,,,,,,,,,,,format_vsi,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,.vsi,,,,bioimaging|formats|edam,,,,,,,,,,,,,,,, 57 | http://edamontology.org/format_xml,xml,.xml,,FALSE,,,http://edamontology.org/format_1915,,,,,,,,,,,,,format_xml,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,.xml,,,,bioimaging|formats|edam,,,,,,,,,,,,,,,, 58 | http://edamontology.org/operation___Clustering,Clustering,,,FALSE,,,http://edamontology.org/operation_0004,,,,,,,,,,,,,operation___Clustering,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 59 | http://edamontology.org/operation___Colocalisation_analysis,Colocalisation analysis,Colocalization analysis,,FALSE,,,http://edamontology.org/operation_3443,,,,,,,,,,,,,operation___Colocalisation_analysis,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Colocalization analysis,,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 60 | http://edamontology.org/operation___Image_convolution,Image convolution,,,FALSE,,,http://edamontology.org/operation___Image_filtering,,,,,,,,,,,,,operation___Image_convolution,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 61 | http://edamontology.org/operation___Image_filtering,Image filtering,,,FALSE,,,http://edamontology.org/operation_Image_processing,,,,,,,,,,,,,operation___Image_filtering,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 62 | http://edamontology.org/operation___Image_validation,Image validation,,,FALSE,,,http://edamontology.org/operation___Validation,,,,,,,,,,,,,operation___Image_validation,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 63 | http://edamontology.org/operation___Optimisation_or_refinement,Optimisation or refinement,Optimization or refinement,,FALSE,,,http://edamontology.org/operation_0004,,,,,,,,,,,,,operation___Optimisation_or_refinement,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Optimization or refinement,,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 64 | http://edamontology.org/operation___Parameter_optimisation,Parameter optimisation,Parameter optimization|Model optimisation|Model training,,FALSE,,,http://edamontology.org/operation___Optimisation_or_refinement,,,,,,,,,,,,,operation___Parameter_optimisation,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Parameter optimization,,,,operations|bioimaging|edam,,,,,,,,,,,,,,,,Model optimisation|Model training 65 | http://edamontology.org/operation___Pixel-based_colocalisation,Pixel-based colocalisation,Pixel-based colocalization|Manders coefficient,,FALSE,,,http://edamontology.org/operation___Colocalisation_analysis,,,,,,,,,,,,,operation___Pixel-based_colocalisation,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Pixel-based colocalization,,,,operations|bioimaging|edam,,,,,,,,,,,,,,,,Manders coefficient 66 | http://edamontology.org/operation___Trajectory_analysis,Trajectory analysis,,,FALSE,,,http://edamontology.org/operation_Image_tracking,,,,,,,,,,,,,operation___Trajectory_analysis,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 67 | http://edamontology.org/operation___Validation,Validation,,,FALSE,,,http://edamontology.org/operation_0004,,,,,,,,,,,,bioimaging,operation___Validation,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,operations|edam,,,,,,,,,,,,,,,, 68 | http://edamontology.org/operation___Wound-healing_analysis,Wound-healing analysis,Wound-healing assay|Scratch assay,,FALSE,,,http://edamontology.org/operation_Image_tracking,,,,,,,,,,,,,operation___Wound-healing_analysis,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Wound-healing assay|Scratch assay 69 | http://edamontology.org/operation__R1NVO6hpWWcs99UiEFiOfK,Tomography reconstruction,,,FALSE,,,http://edamontology.org/operation_Image_reconstruction,,,,,,,,,,,,,operation__R1NVO6hpWWcs99UiEFiOfK,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 70 | http://edamontology.org/operation__R3BGvVm77d5vFMF6f28ZiW,Geometric distortion correction,Lens distortion correction,,FALSE,,,http://edamontology.org/operation__R7MFwdgojfmkZ07yWbdcda0,,,,,,,,,,,,,operation__R3BGvVm77d5vFMF6f28ZiW,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Lens distortion correction,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 71 | http://edamontology.org/operation__R7MFwdgojfmkZ07yWbdcda0,Image correction,Instrument aberration correction|Image pre-processing|Image preprocessing,"Image correction is the removal of aberrations originating from the imaging instrument, lighting, or sample.",FALSE,,,http://edamontology.org/operation_Image_processing,,,,,,,,,,,,,operation__R7MFwdgojfmkZ07yWbdcda0,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,"Image correction is the removal of aberrations originating from the imaging instrument, lighting, or sample.",,Instrument aberration correction,Image pre-processing|Image preprocessing,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 72 | http://edamontology.org/operation__R7qn3VpJyCAPGqdW6ia3h2d,Spectral unmixing,Color deconvolution,,FALSE,,,http://edamontology.org/operation__R7MFwdgojfmkZ07yWbdcda0,,,,,,,,,,,,,operation__R7qn3VpJyCAPGqdW6ia3h2d,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Color deconvolution,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 73 | http://edamontology.org/operation__R8ANfLkuHu47r739AkhxrId,Affine,,,FALSE,,,http://edamontology.org/operation_Geometrical_transform,,,,,,,,,,,,,operation__R8ANfLkuHu47r739AkhxrId,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 74 | http://edamontology.org/operation__R8EfungVXA0oQM2Ac7YY5eu,Single molecule localisation,PAINT image reconstruction|STORM image reconstruction|SMLM image reconstruction|Single-molecule localisation microscopy image reconstruction|PALM image reconstruction,,FALSE,,,http://edamontology.org/operation_Image_reconstruction|http://edamontology.org/operation__RBNng13hEB0CJD5VzSKqrfB,,,,,,,,,,,,,operation__R8EfungVXA0oQM2Ac7YY5eu,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,PAINT image reconstruction|STORM image reconstruction|SMLM image reconstruction|Single-molecule localisation microscopy image reconstruction|PALM image reconstruction,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 75 | http://edamontology.org/operation__R8V95OnTjs7fCvVXWjaXrh6,Structured illumination reconstruction,,,FALSE,,,http://edamontology.org/operation_Image_reconstruction,,,,,,,,,,,,,operation__R8V95OnTjs7fCvVXWjaXrh6,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 76 | http://edamontology.org/operation__R9EjejimBB0tmnQRmZt0RhA,Object registration,,,FALSE,,,http://edamontology.org/operation_Image_registration,,,,,,,,,,,,,operation__R9EjejimBB0tmnQRmZt0RhA,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 77 | http://edamontology.org/operation__R9FvNkpDIaqZQhLVlPsHisj,Synthetic image generation,,,FALSE,,,http://edamontology.org/operation__RDFFD5jBfUw74a3vJeBAGB1,,,,,,,,,,,,,operation__R9FvNkpDIaqZQhLVlPsHisj,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 78 | http://edamontology.org/operation__R9Qf06vxvFj2UbAk7pW3IMG,Filament tracing,,,FALSE,,,http://edamontology.org/operation_3443,,,,,,,,,,,,,operation__R9Qf06vxvFj2UbAk7pW3IMG,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 79 | http://edamontology.org/operation__R9Vc5BV3ZMcLHEL6WEceXbY,Rigid registration,Rigid image registration,,FALSE,,,http://edamontology.org/operation__RLtOI0poPsYRHzgXbAcr2E,,,,,,,,,,,,,operation__R9Vc5BV3ZMcLHEL6WEceXbY,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Rigid image registration,,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 80 | http://edamontology.org/operation__RBh3vNecu5XlIPh3kbMM4Cq,Drift correction,,,FALSE,,,http://edamontology.org/operation__R7MFwdgojfmkZ07yWbdcda0,,,,,,,,,,,,,operation__RBh3vNecu5XlIPh3kbMM4Cq,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 81 | http://edamontology.org/operation__RBNng13hEB0CJD5VzSKqrfB,Isolated object detection,,,FALSE,,,http://edamontology.org/operation_Object_detection,,,,,,,,,,,,,operation__RBNng13hEB0CJD5VzSKqrfB,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 82 | http://edamontology.org/operation__RBPObKBKIMwjdLygBOlvojW,Selective plane illumination microscopy reconstruction,,,FALSE,,,http://edamontology.org/operation_Image_reconstruction,,,,,,,,,,,,,operation__RBPObKBKIMwjdLygBOlvojW,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 83 | http://edamontology.org/operation__RBUpi1JSczmHQSf8Q8fDzG5,Collective object tracking,Wound healing analysis|Scratch assay analysis,,FALSE,,,http://edamontology.org/operation_Image_tracking,,,,,,,,,,,,,operation__RBUpi1JSczmHQSf8Q8fDzG5,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Wound healing analysis|Scratch assay analysis,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 84 | http://edamontology.org/operation__RBYLqCqN4rP7Jy5m5mxpTeM,Frequency analysis,Fast Fourier transform|FFT|Wavelet transform,ToDo: Add Wikipedia links,FALSE,,,http://edamontology.org/operation_Image_processing|http://edamontology.org/operation_2945,,,,,,,,,,,,,operation__RBYLqCqN4rP7Jy5m5mxpTeM,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Fast Fourier transform|FFT|Wavelet transform,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 85 | http://edamontology.org/operation__RCi5QWhY2hXnO46smg6bHRQ,Detector gain correction,,multiplicative,FALSE,,,http://edamontology.org/operation__R7MFwdgojfmkZ07yWbdcda0,,,,,,,,,,,,,operation__RCi5QWhY2hXnO46smg6bHRQ,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 86 | http://edamontology.org/operation__RCPVGO34XrwrJasQ5yWBg9k,Deformable registration,Elastic registration,,FALSE,,,http://edamontology.org/operation_Image_registration,,,,,,,,,,,,,operation__RCPVGO34XrwrJasQ5yWBg9k,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Elastic registration,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 87 | http://edamontology.org/operation__RDetoixS3xEu0agR2CebaoB,Pattern recognition,,,FALSE,,,http://edamontology.org/operation_2423,,,,,,,,,,,,,operation__RDetoixS3xEu0agR2CebaoB,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 88 | http://edamontology.org/operation__RDFFD5jBfUw74a3vJeBAGB1,Image generation,,,FALSE,,,http://edamontology.org/operation_3429,,,,,,,,,,,,,operation__RDFFD5jBfUw74a3vJeBAGB1,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 89 | http://edamontology.org/operation__RDggamr21qZlMqkQmyOdC7l,Landmark detection,,,FALSE,,,http://edamontology.org/operation_Object_detection,,,,,,,,,,,,,operation__RDggamr21qZlMqkQmyOdC7l,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 90 | http://edamontology.org/operation__RDlueIjODveP3FyOknVAqo5,Detector bias correction,Camera bias correction,Additive,FALSE,,,http://edamontology.org/operation__R7MFwdgojfmkZ07yWbdcda0,,,,,,,,,,,,,operation__RDlueIjODveP3FyOknVAqo5,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Camera bias correction,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 91 | http://edamontology.org/operation__RDr8xcZEa4L3mZsslmhhee8,Chromatic aberration correction,Channel shift correction,,FALSE,,,http://edamontology.org/operation__R7MFwdgojfmkZ07yWbdcda0,,,,,,,,,,,,,operation__RDr8xcZEa4L3mZsslmhhee8,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Channel shift correction,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 92 | http://edamontology.org/operation__RDsrmC9l0bZw9kGJzGMCyY8,Isolated object tracking,,,FALSE,,,http://edamontology.org/operation_Image_tracking,,,,,,,,,,,,,operation__RDsrmC9l0bZw9kGJzGMCyY8,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 93 | http://edamontology.org/operation__RDyyXyhf1oHK93opXhEnRND,Image denoising,Noise reduction,,FALSE,,,http://edamontology.org/operation_Image_reconstruction|http://edamontology.org/operation_Image_enhancement,,,,,,,,,,,,,operation__RDyyXyhf1oHK93opXhEnRND,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Noise reduction,,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 94 | http://edamontology.org/operation__Rhb4iyLUQWY4HnhPpuqNNI,Image crop,,,FALSE,,,http://edamontology.org/operation_Image_processing,,,,,,,,,,,,,operation__Rhb4iyLUQWY4HnhPpuqNNI,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 95 | http://edamontology.org/operation__RLtOI0poPsYRHzgXbAcr2E,Affine registration,Affine image registration,,FALSE,,,http://edamontology.org/operation_Image_registration,,,,,,,,,,,,,operation__RLtOI0poPsYRHzgXbAcr2E,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Affine image registration,,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 96 | http://edamontology.org/operation__RyCFuPLOeGxpcGjYbWcWWD,Isolated object classification,,,FALSE,,,http://edamontology.org/operation_2990|http://edamontology.org/operation_3443,,,,,,,,,,,,,operation__RyCFuPLOeGxpcGjYbWcWWD,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 97 | http://edamontology.org/operation_0004,Operation,Function|Computational procedure|Computational subroutine|Computational operation|Function (programming)|Lambda abstraction|Mathematical function|Mathematical operation|Computational method|Computational tool|sumo:Function|Process,"A function that processes a set of inputs and results in a set of outputs, or associates arguments (inputs) with values (outputs).|Special cases are: a) An operation that consumes no input (has no input arguments). Such operation is either a constant function, or an operation depending only on the underlying state. b) An operation that may modify the underlying state but has no output. c) The singular-case operation with no input or output, that still may modify the underlying state.",FALSE,,,http://www.w3.org/2002/07/owl#Thing,,beta12orEarlier,,,,,,,,,,,operation_0004,,,,,,,,,,,,,,,,,,,,,,,,,,,,Function,,"A function that processes a set of inputs and results in a set of outputs, or associates arguments (inputs) with values (outputs).",,Computational procedure|Computational subroutine|Computational operation|Function (programming)|Lambda abstraction|Mathematical function|Mathematical operation|Computational method,Computational tool|sumo:Function|Process,,navigation|edam|http://purl.obolibrary.org/obo/edam#operations|http://purl.obolibrary.org/obo/edam#bioimaging,,,,,,,,,,,,,,,, 98 | http://edamontology.org/operation_0226,Annotation,,,FALSE,,,http://edamontology.org/operation_0004,,,,,,,,,,,,bioimaging?,operation_0226,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,operations|edam,,,,,,,,,,,,,,,, 99 | http://edamontology.org/operation_0337,Visualisation,Plotting,"Re-occurs among biii.info tags (visualisation, rendering, viewer, classification, ...)",FALSE,,,http://edamontology.org/operation_0004,,,,,,,,,,,,bioimaging?,operation_0337,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Plotting,,,operations|edam,,,,,,,,,,,,,,,, 100 | http://edamontology.org/operation_2409,Data handling,,,FALSE,,,http://edamontology.org/operation_0004,,,,,,,,,,,,bioimaging,operation_2409,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,operations|edam,,,,,,,,,,,,,,,, 101 | http://edamontology.org/operation_2423,Prediction and recognition,,"ToDo: Clear up relation between Classification, Clustering, and Prediction and recognition (also in main EDAM)",FALSE,,,http://edamontology.org/operation_0004,,,,,,,,,,,,bioimaging,operation_2423,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,operations|edam,,,,,,,,,,,,,,,, 102 | http://edamontology.org/operation_2928,Alignment construction,,,FALSE,,,http://edamontology.org/operation_0004,,,,,,,,,,,,bioimaging,operation_2928,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,operations|edam,,,,,,,,,,,,,,,, 103 | http://edamontology.org/operation_2945,Analysis,,,FALSE,,,http://edamontology.org/operation_0004,,,,,,,,,,,,bioimaging,operation_2945,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,operations|edam,,,,,,,,,,,,,,,, 104 | http://edamontology.org/operation_2990,Classification,,"Re-occurs among biii.info tags (visualisation, rendering, viewer, classification, ...)|ToDo: Clear up relation between Classification, Clustering, and Prediction and recognition (also in main EDAM)",FALSE,,,http://edamontology.org/operation_0004,,,,,,,,,,,,bioimaging?,operation_2990,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,operations|edam,,,,,,,,,,,,,,,, 105 | http://edamontology.org/operation_3096,Editing,,,FALSE,,,http://edamontology.org/operation_2409,,,,,,,,,,,,bioimaging,operation_3096,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,operations|edam,,,,,,,,,,,,,,,, 106 | http://edamontology.org/operation_3429,Generation,,,FALSE,,,http://edamontology.org/operation_0004,,,,,,,,,,,,bioimaging,operation_3429,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,operations|edam,,,,,,,,,,,,,,,, 107 | http://edamontology.org/operation_3434,Conversion,,,FALSE,,,http://edamontology.org/operation_0004,,,,,,,,,,,,bioimaging,operation_3434,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,operations|edam,,,,,,,,,,,,,,,, 108 | http://edamontology.org/operation_3441,Plotting,,"Visualisation vs Plotting vs Image generation. Should these be merged? Which of these should be the top concept, and which sub-concepts, and which narrow synonyms?",FALSE,,,http://edamontology.org/operation_0337,,,,,,,,,,,,bioimaging,operation_3441,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,operations|edam,,,,,,,,,,,,,,,, 109 | http://edamontology.org/operation_3443,Image analysis,General image analysis,,FALSE,,,http://edamontology.org/operation_2945,,,,,,,,,,,,,operation_3443,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,General image analysis,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 110 | http://edamontology.org/operation_3553,Image annotation,,,FALSE,,,http://edamontology.org/operation_0226,,,,,,,,,,,,,operation_3553,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 111 | http://edamontology.org/operation_Active_contours,Active contours,Active contour model|Active contour models|Snakes,,FALSE,,,http://edamontology.org/operation_Image_segmentation,,,,,,,,,,,,,operation_Active_contours,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Active contour model|Active contour models,Snakes,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 112 | http://edamontology.org/operation_Adaptative_thresholding,Adaptative thresholding,,,FALSE,,,http://edamontology.org/operation_Image_segmentation,,,,,,,,,,,,,operation_Adaptative_thresholding,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 113 | http://edamontology.org/operation_Anaglyph,Anaglyph,,,FALSE,,,http://edamontology.org/operation_Image_visualisation,,,,,,,,,,,,,operation_Anaglyph,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 114 | http://edamontology.org/operation_Cell_counting,Object counting,,,FALSE,,,http://edamontology.org/operation_3443,,,,,,,,,,,,,operation_Cell_counting,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 115 | http://edamontology.org/operation_Cell_segmentation,Cell segmentation,,,FALSE,,,http://edamontology.org/operation_Image_segmentation,,,,,,,,,,,,,operation_Cell_segmentation,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 116 | http://edamontology.org/operation_Cell_tracking,Cell tracking,,,FALSE,,,http://edamontology.org/operation__RDsrmC9l0bZw9kGJzGMCyY8,,,,,,,,,,,,,operation_Cell_tracking,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 117 | http://edamontology.org/operation_Closing,Closing,,,FALSE,,,http://edamontology.org/operation_Morphological_operations,,,,,,,,,,,,,operation_Closing,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 118 | http://edamontology.org/operation_Dilation,Dilation,,,FALSE,,,http://edamontology.org/operation_Morphological_operations,,,,,,,,,,,,,operation_Dilation,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 119 | http://edamontology.org/operation_Distance_transform,Distance transform,,,FALSE,,,http://edamontology.org/operation_Morphological_operations,,,,,,,,,,,,,operation_Distance_transform,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 120 | http://edamontology.org/operation_Edge_detection,Feature enhancement,Edge enhancement|Edge detection,,FALSE,,,http://edamontology.org/operation_Image_enhancement,,,,,,,,,,,,,operation_Edge_detection,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Edge enhancement,,,operations|bioimaging|edam,,,,,,,,,,,,,,,,Edge detection 121 | http://edamontology.org/operation_Erosion,Erosion,,,FALSE,,,http://edamontology.org/operation_Morphological_operations,,,,,,,,,,,,,operation_Erosion,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 122 | http://edamontology.org/operation_Feature_extraction,Object feature extraction,Feature detection|Image labeling|SURF,,FALSE,,,http://edamontology.org/operation_3443,,,,,,,,,,,,,operation_Feature_extraction,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Feature detection|Image labeling,SURF,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 123 | http://edamontology.org/operation_Geometrical_transform,Geometrical transform,,,FALSE,,,http://edamontology.org/operation_Image_processing,,,,,,,,,,,,,operation_Geometrical_transform,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 124 | http://edamontology.org/operation_Homogeneity,Homogeneity,,,FALSE,,,http://edamontology.org/operation_Feature_extraction,,,,,,,,,,,,,operation_Homogeneity,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 125 | http://edamontology.org/operation_Illumination_correction,Illumination correction,Flat field correction,,FALSE,,,http://edamontology.org/operation__R7MFwdgojfmkZ07yWbdcda0,,,,,,,,,,,,,operation_Illumination_correction,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Flat field correction,,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 126 | http://edamontology.org/operation_Image_classification,Image classification,Object classification|Classification|Image clustering,,FALSE,,,http://edamontology.org/operation_2990|http://edamontology.org/operation_3443,,,,,,,,,,,,,operation_Image_classification,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Object classification|Classification,Image clustering,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 127 | http://edamontology.org/operation_Image_colocalization,Object-based colocalisation,Object-based colocalization,,FALSE,,,http://edamontology.org/operation___Colocalisation_analysis,,,,,,,,,,,,,operation_Image_colocalization,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Object-based colocalization,,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 128 | http://edamontology.org/operation_Image_deconvolution,Image deconvolution,,,FALSE,,,http://edamontology.org/operation_Image_reconstruction,,,,,,,,,,,,,operation_Image_deconvolution,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 129 | http://edamontology.org/operation_Image_enhancement,Image enhancement,Image restoration,"Image enhancement moves further away from the ""reality"", as opposed to Image reconstruction that moves closer to the ""reality"".",FALSE,,,http://edamontology.org/operation_Image_processing,,,,,,,,,,,,,operation_Image_enhancement,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Image restoration,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 130 | http://edamontology.org/operation_Image_measurement,Image feature extraction,Image measurement,,FALSE,,,http://edamontology.org/operation_3443,,,,,,,,,,,,,operation_Image_measurement,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Image measurement,,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 131 | http://edamontology.org/operation_Image_processing,Image processing,Image manipulation??|Image postprocessing,,FALSE,,,http://edamontology.org/operation_0004,,,,,,,,,,,,,operation_Image_processing,,,,,,,,,,,,,,,,,,,,,,,,,,,,Image manipulation??,,,,Image postprocessing,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 132 | http://edamontology.org/operation_Image_reconstruction,Image reconstruction,Image restoration,"Image enhancement moves further away from the ""reality"", as opposed to Image reconstruction that moves closer to the ""reality"".",FALSE,,,http://edamontology.org/operation_Image_processing|http://edamontology.org/operation__RDFFD5jBfUw74a3vJeBAGB1,,,,,,,,,,,,,operation_Image_reconstruction,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Image restoration,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 133 | http://edamontology.org/operation_Image_registration,Image registration,Image alignment,,FALSE,,,http://edamontology.org/operation_Image_processing|http://edamontology.org/operation_2928,,,,,,,,,,,,,operation_Image_registration,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Image alignment,,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 134 | http://edamontology.org/operation_Image_segmentation,Image segmentation,,,FALSE,,,http://edamontology.org/operation_3443,,,,,,,,,,,,,operation_Image_segmentation,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 135 | http://edamontology.org/operation_Image_smoothing,Smoothing,Gaussian filtering|Gaussian blurring|Gaussian smoothing|Blurring,,FALSE,,,http://edamontology.org/operation_Image_enhancement,,,,,,,,,,,,,operation_Image_smoothing,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Gaussian filtering|Gaussian blurring|Gaussian smoothing,Blurring,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 136 | http://edamontology.org/operation_Image_stitching,Image stitching,,,FALSE,,,http://edamontology.org/operation_Image_reconstruction,,,,,,,,,,,,,operation_Image_stitching,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 137 | http://edamontology.org/operation_Image_thresholding,Image thresholding,Thresholding|Clustering-based image thresholding,,FALSE,,,http://edamontology.org/operation_Image_segmentation,,,,,,,,,,,,,operation_Image_thresholding,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Thresholding,Clustering-based image thresholding,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 138 | http://edamontology.org/operation_Image_tracking,Object tracking,Tracking,,FALSE,,,http://edamontology.org/operation_3443,,,,,,,,,,,,,operation_Image_tracking,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Tracking,,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 139 | http://edamontology.org/operation_Image_visualisation,Image visualisation,Rendering|Lookup table,"Visualisation vs Plotting vs Image generation. Should these be merged? Which of these should be the top concept, and which sub-concepts, and which narrow synonyms?",FALSE,,,http://edamontology.org/operation_0337,,,,,,,,,,,,,operation_Image_visualisation,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Rendering,Lookup table,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 140 | http://edamontology.org/operation_Interactive_segmentation,Interactive segmentation,Manual segmentation,,FALSE,,,http://edamontology.org/operation_Image_segmentation,,,,,,,,,,,,,operation_Interactive_segmentation,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Manual segmentation,,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 141 | http://edamontology.org/operation_Linear_transformation,Linear transformation,,,FALSE,,,http://edamontology.org/operation__R8ANfLkuHu47r739AkhxrId,,,,,,,,,,,,,operation_Linear_transformation,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 142 | http://edamontology.org/operation_Local_thresholding,Local thresholding,,Concrete algorithm?,FALSE,,,http://edamontology.org/operation_Image_segmentation,,,,,,,,,,,,,operation_Local_thresholding,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 143 | http://edamontology.org/operation_Montage,Montage,,,FALSE,,,http://edamontology.org/operation_Image_visualisation,,,,,,,,,,,,,operation_Montage,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 144 | http://edamontology.org/operation_Morphological_operations,Morphological operation,Morphological image processing,,FALSE,,,http://edamontology.org/operation_Image_processing,,,,,,,,,,,,,operation_Morphological_operations,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Morphological image processing,,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 145 | http://edamontology.org/operation_Neuron_image_analysis,Neuron image analysis,,,FALSE,,,http://edamontology.org/operation_3443,,,,,,,,,,,,,operation_Neuron_image_analysis,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 146 | http://edamontology.org/operation_Object_detection,Object detection,Particle detection,,FALSE,,,http://edamontology.org/operation_3443,,,,,,,,,,,,,operation_Object_detection,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Particle detection,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 147 | http://edamontology.org/operation_Opening,Opening,,,FALSE,,,http://edamontology.org/operation_Morphological_operations,,,,,,,,,,,,,operation_Opening,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 148 | http://edamontology.org/operation_Optical_flow_analysis,Optical flow analysis,,,FALSE,,,http://edamontology.org/operation_3443,,,,,,,,,,,,,operation_Optical_flow_analysis,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 149 | http://edamontology.org/operation_Overlay,Overlay,,,FALSE,,,http://edamontology.org/operation_Image_visualisation,,,,,,,,,,,,,operation_Overlay,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 150 | http://edamontology.org/operation_Particle_tracking,Particle tracking,,,FALSE,,,http://edamontology.org/operation__RDsrmC9l0bZw9kGJzGMCyY8,,,,,,,,,,,,,operation_Particle_tracking,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 151 | http://edamontology.org/operation_Pixel_classification,Pixel classification,,,FALSE,,,http://edamontology.org/operation_2990|http://edamontology.org/operation_3443,,,,,,,,,,,,,operation_Pixel_classification,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 152 | http://edamontology.org/operation_Projection,Image projection,Minimum projection|Maximum projection|Maximum intensity projection|Mean projection,,FALSE,,,http://edamontology.org/operation_Image_reconstruction,,,,,,,,,,,,,operation_Projection,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Minimum projection|Maximum projection,Maximum intensity projection|Mean projection,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 153 | http://edamontology.org/operation_Rotation,Rotation,,,FALSE,,,http://edamontology.org/operation__R8ANfLkuHu47r739AkhxrId,,,,,,,,,,,,,operation_Rotation,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 154 | http://edamontology.org/operation_Shape_features,Shape features,Area,,FALSE,,,http://edamontology.org/operation_Feature_extraction,,,,,,,,,,,,,operation_Shape_features,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Area,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 155 | http://edamontology.org/operation_Skeletonization,Skeletonisation,Medial axis,,FALSE,,,http://edamontology.org/operation_Morphological_operations,,,,,,,,,,,,,operation_Skeletonization,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Medial axis,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 156 | http://edamontology.org/operation_Spot_extraction,Spot detection,,,FALSE,,,http://edamontology.org/operation_Object_detection,,,,,,,,,,,,,operation_Spot_extraction,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 157 | http://edamontology.org/operation_Texture_extraction,Texture extraction,Texture feature extraction|Inverse Difference Moment,,FALSE,,,http://edamontology.org/operation_Feature_extraction,,,,,,,,,,,,,operation_Texture_extraction,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Texture feature extraction,Inverse Difference Moment,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 158 | http://edamontology.org/operation_Volume_rendering,Volume rendering,,,FALSE,,,http://edamontology.org/operation_Image_visualisation,,,,,,,,,,,,,operation_Volume_rendering,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 159 | http://edamontology.org/operation_Warping,Warping,,,FALSE,,,http://edamontology.org/operation_Geometrical_transform,,,,,,,,,,,,,operation_Warping,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 160 | http://edamontology.org/operation_Watershed,Watershed,,Concrete algorithm?,FALSE,,,http://edamontology.org/operation_Image_segmentation,,,,,,,,,,,,,operation_Watershed,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,operations|bioimaging|edam,,,,,,,,,,,,,,,, 161 | http://edamontology.org/topic___F%C3%B6rster_resonance_energy_transfer,Förster resonance energy transfer,FRET|Fluorescence resonance energy transfer,,FALSE,,,http://edamontology.org/topic_Fluorescent_microscopy,,,,,,,,,,,,,B6rster_resonance_energy_transfer,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,FRET|Fluorescence resonance energy transfer,,,,bioimaging|topics|edam,,,,,,,,,,,,,,,, 162 | http://edamontology.org/topic___Fluctuation_based_microscopy,Fluctuation based microscopy,SOFI|Super resolution optical fluctuation imaging|Super resolution radial fluctuations|SRRF|Photobleaching microscopy with non-linear processing|PiMP,,FALSE,,,http://edamontology.org/topic_Fluorescent_microscopy,,,,,,,,,,,,,topic___Fluctuation_based_microscopy,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,SOFI|Super resolution optical fluctuation imaging|Super resolution radial fluctuations|SRRF|Photobleaching microscopy with non-linear processing|PiMP,,,bioimaging|topics|edam,,,,,,,,,,,,,,,, 163 | http://edamontology.org/topic___Fluorescence_correlative_spectroscopy,Fluorescence correlative spectroscopy,FCS|Fluorescence cross-correlative spectroscopy|FLCS|FCCS|Fluorescence Lifetime Correlation Microscopy,,FALSE,,,http://edamontology.org/topic_Fluorescent_microscopy|http://edamontology.org/topic__RBfI2XgIsxcfKonPPluKAhK,,,,,,,,,,,,,topic___Fluorescence_correlative_spectroscopy,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,FCS,,Fluorescence cross-correlative spectroscopy|FLCS|FCCS|Fluorescence Lifetime Correlation Microscopy,,bioimaging|topics|edam,,,,,,,,,,,,,,,, 164 | http://edamontology.org/topic___Fluorescence_lifetime_imaging,Fluorescence lifetime imaging microscopy,FLIM,,FALSE,,,http://edamontology.org/topic_Fluorescent_microscopy,,,,,,,,,,,,,topic___Fluorescence_lifetime_imaging,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,FLIM,,,,bioimaging|topics|edam,,,,,,,,,,,,,,,, 165 | http://edamontology.org/topic___Fluorescence_recovery_after_photobleaching,Fluorescence recovery after photobleaching,FRAP|Fluorescence Localization after photobleaching|Fluorescence loss in photobleaching|FLIP|iFRAP|Inverse Fluorescence Recovery after photobleaching|FLAP,,FALSE,,,http://edamontology.org/topic_Fluorescent_microscopy,,,,,,,,,,,,,topic___Fluorescence_recovery_after_photobleaching,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,FRAP,,Fluorescence Localization after photobleaching|Fluorescence loss in photobleaching|FLIP|iFRAP|Inverse Fluorescence Recovery after photobleaching|FLAP,,bioimaging|topics|edam,,,,,,,,,,,,,,,, 166 | http://edamontology.org/topic___Image_correlation_spectroscopy,Image correlation spectroscopy,ICS|Particle Image Correlation Spectroscopy|Raster Image Correlation Spectroscopy|RICS|PICS,,FALSE,,,http://edamontology.org/topic_Fluorescent_microscopy,,,,,,,,,,,,,topic___Image_correlation_spectroscopy,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,ICS,,Particle Image Correlation Spectroscopy|Raster Image Correlation Spectroscopy|RICS|PICS,,bioimaging|topics|edam,,,,,,,,,,,,,,,, 167 | http://edamontology.org/topic___Reinforcement_learning,Reinforcement learning,,,FALSE,,,http://edamontology.org/topic_3474,,,,,,,,,,,,,topic___Reinforcement_learning,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bioimaging|topics|edam,,,,,,,,,,,,,,,, 168 | http://edamontology.org/topic___Supervised_learning,Supervised learning,,,FALSE,,,http://edamontology.org/topic_3474,,,,,,,,,,,,,topic___Supervised_learning,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bioimaging|topics|edam,,,,,,,,,,,,,,,, 169 | http://edamontology.org/topic___Unsupervised_learning,Unsupervised learning,,,FALSE,,,http://edamontology.org/topic_3474,,,,,,,,,,,,,topic___Unsupervised_learning,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bioimaging|topics|edam,,,,,,,,,,,,,,,, 170 | http://edamontology.org/topic__R77vfEkRqjIenYUqhDPvdkM,Cryo fixation,,,FALSE,,,http://edamontology.org/topic__ReQzVVVh0IPyN0c1V5wQVO,,,,,,,,,,,,,topic__R77vfEkRqjIenYUqhDPvdkM,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bioimaging|topics|edam,,,,,,,,,,,,,,,, 171 | http://edamontology.org/topic__R7LElbFkBgKS401YKsVtNck,Transmission electron microscopy,TEM,,FALSE,,,http://edamontology.org/topic_0611,,,,,,,,,,,,,topic__R7LElbFkBgKS401YKsVtNck,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,TEM,,,,bioimaging|topics|edam,,,,,,,,,,,,,,,, 172 | http://edamontology.org/topic__R7Vn7GbwtqVvGWNAMGdcNW1,Point-scanning microscopy,,,FALSE,,,http://edamontology.org/topic_3385,,,,,,,,,,,,,topic__R7Vn7GbwtqVvGWNAMGdcNW1,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bioimaging|topics|edam,,,,,,,,,,,,,,,, 173 | http://edamontology.org/topic__R7WRbf9Y8ySw9QWPwAjzcUa,In-vitro imaging,,,FALSE,,,http://edamontology.org/topic__RL4rPCXlIu9uzNrGcbcSNp,,,,,,,,,,,,,topic__R7WRbf9Y8ySw9QWPwAjzcUa,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bioimaging|topics|edam,,,,,,,,,,,,,,,, 174 | http://edamontology.org/topic__R89wYXZ2735GXdn4m4GOT9n,Dark field microscopy,,,FALSE,,,http://edamontology.org/topic__R9P5gEAm1wic4R2PcZ7ZpPA,,,,,,,,,,,,,topic__R89wYXZ2735GXdn4m4GOT9n,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bioimaging|topics|edam,,,,,,,,,,,,,,,, 175 | http://edamontology.org/topic__R8nlu8VCuL5nvBFgOaGNHgT,Polarized light microscopy,,,FALSE,,,http://edamontology.org/topic__R9P5gEAm1wic4R2PcZ7ZpPA,,,,,,,,,,,,,topic__R8nlu8VCuL5nvBFgOaGNHgT,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bioimaging|topics|edam,,,,,,,,,,,,,,,, 176 | http://edamontology.org/topic__R8oQpUEjKZjNQCTB4x3JQuJ,Single molecule localization microscopy,SMLM|STORM|Direct stochastic optical reconstruction microscopy|GSDIM|PALM|Photoactivated Localization Microscopy|Fluorescence Photoactivation Localization Microscopy|Ground State Depletion Individual Molecule Return|dSTORM|Stochastic optical reconstruction microscopy,,FALSE,,,http://edamontology.org/topic_Super-resolution_microscopy,,,,,,,,,,,,,topic__R8oQpUEjKZjNQCTB4x3JQuJ,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,SMLM,STORM|Direct stochastic optical reconstruction microscopy|GSDIM|PALM|Photoactivated Localization Microscopy|Fluorescence Photoactivation Localization Microscopy|Ground State Depletion Individual Molecule Return|dSTORM|Stochastic optical reconstruction microscopy,,,bioimaging|topics|edam,,,,,,,,,,,,,,,, 177 | http://edamontology.org/topic__R8Ss4wIFt90wZ1yjFLfXyPM,Correlative Light and Electron Microscopy,CLEM,,FALSE,,,http://edamontology.org/topic_Microscopy,,,,,,,,,,,,,topic__R8Ss4wIFt90wZ1yjFLfXyPM,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,CLEM,,,,bioimaging|topics|edam,,,,,,,,,,,,,,,, 178 | http://edamontology.org/topic__R8XUtD89JCyeUaaVebe9Mkw,In-vivo imaging,,,FALSE,,,http://edamontology.org/topic__RL4rPCXlIu9uzNrGcbcSNp,,,,,,,,,,,,,topic__R8XUtD89JCyeUaaVebe9Mkw,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bioimaging|topics|edam,,,,,,,,,,,,,,,, 179 | http://edamontology.org/topic__R96toeNl9iMp8oqv9augU84,In-silico reconstruction,Morphological reconstruction|3D reconstruction,,FALSE,,,http://edamontology.org/topic_0003,,,,,,,,,,,,,topic__R96toeNl9iMp8oqv9augU84,,,,,,,,,,,,,,,,,,,,,,,,,,,,Morphological reconstruction|3D reconstruction,,,,,,,bioimaging|topics|edam,,,,,,,,,,,,,,,, 180 | http://edamontology.org/topic__R9Cmje2ZUXyDW6aQAvFhwSM,Confocal microscopy,,,FALSE,,,http://edamontology.org/topic__R7Vn7GbwtqVvGWNAMGdcNW1,,,,,,,,,,,,,topic__R9Cmje2ZUXyDW6aQAvFhwSM,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bioimaging|topics|edam,,,,,,,,,,,,,,,, 181 | http://edamontology.org/topic__R9O3HmIAjoN5IqXXXRukzzr,Electron tomography,,,FALSE,,,http://edamontology.org/topic__R7LElbFkBgKS401YKsVtNck,,,,,,,,,,,,,topic__R9O3HmIAjoN5IqXXXRukzzr,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bioimaging|topics|edam,,,,,,,,,,,,,,,, 182 | http://edamontology.org/topic__R9P5gEAm1wic4R2PcZ7ZpPA,Transmission light microscopy,,,FALSE,,,http://edamontology.org/topic_3385,,,,,,,,,,,,,topic__R9P5gEAm1wic4R2PcZ7ZpPA,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bioimaging|topics|edam,,,,,,,,,,,,,,,, 183 | http://edamontology.org/topic__R9PtYz3fOHhRsnKnQzFIXff,Critical-point drying,,,FALSE,,,http://edamontology.org/topic__ReQzVVVh0IPyN0c1V5wQVO,,,,,,,,,,,,,topic__R9PtYz3fOHhRsnKnQzFIXff,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bioimaging|topics|edam,,,,,,,,,,,,,,,, 184 | http://edamontology.org/topic__R9WwNqEL8rvkyBPk7GkDTYh,Photoacoustic tomography,PAT,,FALSE,,,http://edamontology.org/topic_3452,,,,,,,,,,,,,topic__R9WwNqEL8rvkyBPk7GkDTYh,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,PAT,,bioimaging|topics|edam,,,,,,,,,,,,,,,, 185 | http://edamontology.org/topic__R9zg34pnGmTyzPidJj9vfJt,Focused ion beam scanning electron microscopy,FIB-SEM,,FALSE,,,http://edamontology.org/topic__RBZsLMTdyuEDtVe2fge61l0,,,,,,,,,,,,,topic__R9zg34pnGmTyzPidJj9vfJt,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,FIB-SEM,,,,bioimaging|topics|edam,,,,,,,,,,,,,,,, 186 | http://edamontology.org/topic__RB4unXFUWvdBe91ihVAA9rR,Ex-vivo imaging,,,FALSE,,,http://edamontology.org/topic__RL4rPCXlIu9uzNrGcbcSNp,,,,,,,,,,,,,topic__RB4unXFUWvdBe91ihVAA9rR,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bioimaging|topics|edam,,,,,,,,,,,,,,,, 187 | http://edamontology.org/topic__RBDp7HwdUBEjpS6PRjYfV2V,Bioimage informatics,,,FALSE,,,http://edamontology.org/topic_0003,,,,,,,,,,,,,topic__RBDp7HwdUBEjpS6PRjYfV2V,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bioimaging|topics|edam,,,,,,,,,,,,,,,, 188 | http://edamontology.org/topic__RBfI2XgIsxcfKonPPluKAhK,Spectroscopy,,,FALSE,,,http://edamontology.org/topic_3382,,,,,,,,,,,,,topic__RBfI2XgIsxcfKonPPluKAhK,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bioimaging|topics|edam,,,,,,,,,,,,,,,, 189 | http://edamontology.org/topic__RBHw300pzIYcttGsAmIZvk5,Ultrasonography,,,FALSE,,,http://edamontology.org/topic_3382,,,,,,,,,,,,,topic__RBHw300pzIYcttGsAmIZvk5,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bioimaging|topics|edam,,,,,,,,,,,,,,,, 190 | http://edamontology.org/topic__RBKlmE9DGTZwEwxw0juThGg,Multi-photon microscopy,Two-photon excitation Microscopy (TPEM),,FALSE,,,http://edamontology.org/topic__R7Vn7GbwtqVvGWNAMGdcNW1,,,,,,,,,,,,,topic__RBKlmE9DGTZwEwxw0juThGg,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Two-photon excitation Microscopy (TPEM),,,bioimaging|topics|edam,,,,,,,,,,,,,,,, 191 | http://edamontology.org/topic__RBkRgSi7js0c70kjiPgYTgR,Single-photon emission computed tomography,SPECT,,FALSE,,,http://edamontology.org/topic_3452,,,,,,,,,,,,,topic__RBkRgSi7js0c70kjiPgYTgR,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,SPECT,,bioimaging|topics|edam,,,,,,,,,,,,,,,, 192 | http://edamontology.org/topic__RbM6PZFI9i5lG4gzAySn0c,Freeze fracturing,,,FALSE,,,http://edamontology.org/topic__ReQzVVVh0IPyN0c1V5wQVO,,,,,,,,,,,,,topic__RbM6PZFI9i5lG4gzAySn0c,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bioimaging|topics|edam,,,,,,,,,,,,,,,, 193 | http://edamontology.org/topic__RBNfUSYBOKUapWrsyPMMTkw,Cryo scanning electron microscopy,Cryo SEM,,FALSE,,,http://edamontology.org/topic__RBZsLMTdyuEDtVe2fge61l0,,,,,,,,,,,,,topic__RBNfUSYBOKUapWrsyPMMTkw,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Cryo SEM,,,,bioimaging|topics|edam,,,,,,,,,,,,,,,, 194 | http://edamontology.org/topic__RBNoPZIOvBhdWGe8mFNpoWQ,Fixed sample imaging,,,FALSE,,,http://edamontology.org/topic_3382,,,,,,,,,,,,,topic__RBNoPZIOvBhdWGe8mFNpoWQ,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bioimaging|topics|edam,,,,,,,,,,,,,,,, 195 | http://edamontology.org/topic__RBsSZve5PnQFO3scMDWo9f0,Area-capturing microscopy,,,FALSE,,,http://edamontology.org/topic_3385,,,,,,,,,,,,,topic__RBsSZve5PnQFO3scMDWo9f0,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bioimaging|topics|edam,,,,,,,,,,,,,,,, 196 | http://edamontology.org/topic__RByvmgDpAo4FOrMdvTm1gwR,Serial block-face scanning electron microscopy,,,FALSE,,,http://edamontology.org/topic__RBZsLMTdyuEDtVe2fge61l0,,,,,,,,,,,,,topic__RByvmgDpAo4FOrMdvTm1gwR,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bioimaging|topics|edam,,,,,,,,,,,,,,,, 197 | http://edamontology.org/topic__RBZsLMTdyuEDtVe2fge61l0,Scanning electron microscopy,,,FALSE,,,http://edamontology.org/topic_0611,,,,,,,,,,,,,topic__RBZsLMTdyuEDtVe2fge61l0,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bioimaging|topics|edam,,,,,,,,,,,,,,,, 198 | http://edamontology.org/topic__RC91JqkkQnsmvg8zuG6Td7q,Structured illumination microscopy,SIM|Multifocal Structured Illumination Microscopy|Saturated Structured Illumination|Instant linear structured Illumination Microscopy|iSIM|MSIM|SSIM,,FALSE,,,http://edamontology.org/topic_Super-resolution_microscopy,,,,,,,,,,,,,topic__RC91JqkkQnsmvg8zuG6Td7q,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,SIM,,Multifocal Structured Illumination Microscopy|Saturated Structured Illumination|Instant linear structured Illumination Microscopy|iSIM|MSIM|SSIM,,bioimaging|topics|edam,,,,,,,,,,,,,,,, 199 | http://edamontology.org/topic__RDCjx86atJP685sX1zrE2ia,Cryo electron tomography,,,FALSE,,,http://edamontology.org/topic__R9O3HmIAjoN5IqXXXRukzzr,,,,,,,,,,,,,topic__RDCjx86atJP685sX1zrE2ia,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bioimaging|topics|edam,,,,,,,,,,,,,,,, 200 | http://edamontology.org/topic__RDdX0TswBVhmWiS1dI3pghN,Bright field microscopy,,,FALSE,,,http://edamontology.org/topic__R9P5gEAm1wic4R2PcZ7ZpPA,,,,,,,,,,,,,topic__RDdX0TswBVhmWiS1dI3pghN,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bioimaging|topics|edam,,,,,,,,,,,,,,,, 201 | http://edamontology.org/topic__RDos3h5yRfjhLUcOImDOFgB,Positron emission tomography,PET scan,,FALSE,,,http://edamontology.org/topic_3452,,,,,,,,,,,,,topic__RDos3h5yRfjhLUcOImDOFgB,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,PET scan,,,bioimaging|topics|edam,,,,,,,,,,,,,,,, 202 | http://edamontology.org/topic__RDvZSyRAcr8fonKvKdVoXw2,Bioluminescence imaging,,,FALSE,,,http://edamontology.org/topic_3382,,,,,,,,,,,,,topic__RDvZSyRAcr8fonKvKdVoXw2,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bioimaging|topics|edam,,,,,,,,,,,,,,,, 203 | http://edamontology.org/topic__ReQzVVVh0IPyN0c1V5wQVO,Sample preparation,,,FALSE,,,http://edamontology.org/topic_0003,,,,,,,,,,,,,topic__ReQzVVVh0IPyN0c1V5wQVO,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bioimaging|topics|edam,,,,,,,,,,,,,,,, 204 | http://edamontology.org/topic__RkSYwMcVWG5FCi4BaWDMaJ,High-pressure freezing,,,FALSE,,,http://edamontology.org/topic__R77vfEkRqjIenYUqhDPvdkM,,,,,,,,,,,,,topic__RkSYwMcVWG5FCi4BaWDMaJ,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bioimaging|topics|edam,,,,,,,,,,,,,,,, 205 | http://edamontology.org/topic__RL4rPCXlIu9uzNrGcbcSNp,Live sample imaging,,,FALSE,,,http://edamontology.org/topic_3382,,,,,,,,,,,,,topic__RL4rPCXlIu9uzNrGcbcSNp,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bioimaging|topics|edam,,,,,,,,,,,,,,,, 206 | http://edamontology.org/topic__RMCSMqSNvOTurvW2FV8tjN,Stimulated Emission Depletion microscopy,STED-4Pi|STED|Reversible Saturable Optical Linear Fluorescence Transitions microscopy|MinFlux|gated-STED|RESOLFT,,FALSE,,,http://edamontology.org/topic_Super-resolution_microscopy,,,,,,,,,,,,,topic__RMCSMqSNvOTurvW2FV8tjN,,,,,,,,,,,,,,,,,,,,,,,,,,,,STED-4Pi,,,STED,Reversible Saturable Optical Linear Fluorescence Transitions microscopy|MinFlux|gated-STED|RESOLFT,,,bioimaging|topics|edam,,,,,,,,,,,,,,,, 207 | http://edamontology.org/topic__RMctC69gGv9qYqwKCXxeLF,Plunge freezing,,,FALSE,,,http://edamontology.org/topic__R77vfEkRqjIenYUqhDPvdkM,,,,,,,,,,,,,topic__RMctC69gGv9qYqwKCXxeLF,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bioimaging|topics|edam,,,,,,,,,,,,,,,, 208 | http://edamontology.org/topic__Rn8MnorStmqIkNlAVZWBc0,Confocal fluorescence microscopy,Laser scanning microscopy|Nipkow disk microscopy|Spinning Disk confocal microscopy|LSM|SDCM,,FALSE,,,http://edamontology.org/topic_Fluorescent_microscopy|http://edamontology.org/topic__R9Cmje2ZUXyDW6aQAvFhwSM,,,,,,,,,,,,,topic__Rn8MnorStmqIkNlAVZWBc0,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Laser scanning microscopy|Nipkow disk microscopy|Spinning Disk confocal microscopy|LSM|SDCM,,,bioimaging|topics|edam,,,,,,,,,,,,,,,, 209 | http://edamontology.org/topic__RNFOzq5E0ZVBh5Euhn06rn,DIC microscopy,Nomarski interferential contrast (NIC)|Nomarski microscopy,,FALSE,,,http://edamontology.org/topic__R9P5gEAm1wic4R2PcZ7ZpPA,,,,,,,,,,,,,topic__RNFOzq5E0ZVBh5Euhn06rn,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Nomarski interferential contrast (NIC)|Nomarski microscopy,,,bioimaging|topics|edam,,,,,,,,,,,,,,,, 210 | http://edamontology.org/topic__RtBCcu7zJiS0phrbR2HzAI,Phase contrast microscopy,Phase imaging|Quantitative phase contrast imaging,,FALSE,,,http://edamontology.org/topic__R9P5gEAm1wic4R2PcZ7ZpPA,,,,,,,,,,,,,topic__RtBCcu7zJiS0phrbR2HzAI,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Phase imaging,Quantitative phase contrast imaging,,bioimaging|topics|edam,,,,,,,,,,,,,,,, 211 | http://edamontology.org/topic__RwTXNChEQ9hv7IpvHjQGin,Data sharing,,,FALSE,,,http://edamontology.org/topic_0003,,,,,,,,,,,,,topic__RwTXNChEQ9hv7IpvHjQGin,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bioimaging|topics|edam,,,,,,,,,,,,,,,, 212 | http://edamontology.org/topic__RxfmHE99gOkUOOML5krfsJ,Computerized tomography,CT,,FALSE,,,http://edamontology.org/topic_3452,,,,,,,,,,,,,topic__RxfmHE99gOkUOOML5krfsJ,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,CT,,,bioimaging|topics|edam,,,,,,,,,,,,,,,, 213 | http://edamontology.org/topic__RXLeVr0cHSXzTSRyO5zwZD,Scanning transmission electron microscopy,STEM,,FALSE,,,http://edamontology.org/topic__R7LElbFkBgKS401YKsVtNck,,,,,,,,,,,,,topic__RXLeVr0cHSXzTSRyO5zwZD,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,STEM,,,,bioimaging|topics|edam,,,,,,,,,,,,,,,, 214 | http://edamontology.org/topic_0003,Topic,sumo:FieldOfStudy,"A category denoting a rather broad domain or field of interest, of study, application, work, data, or technology. Topics have no clearly defined borders between each other.",FALSE,,,http://www.w3.org/2002/07/owl#Thing,,beta12orEarlier,,,,,,,,,,,topic_0003,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,"A category denoting a rather broad domain or field of interest, of study, application, work, data, or technology. Topics have no clearly defined borders between each other.",,,sumo:FieldOfStudy,,navigation|http://purl.obolibrary.org/obo/edam#edam|http://purl.obolibrary.org/obo/edam#bioimaging|http://purl.obolibrary.org/obo/edam#topics,,,,,,,,,,,,,,,, 215 | http://edamontology.org/topic_0593,Nuclear magnetic resonance spectroscopy,NMR,,FALSE,,,http://edamontology.org/topic__RBfI2XgIsxcfKonPPluKAhK,,,,,,,,,,,,,topic_0593,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,NMR,,,,bioimaging|topics|edam,,,,,,,,,,,,,,,, 216 | http://edamontology.org/topic_0611,Electron microscopy,,,FALSE,,,http://edamontology.org/topic_Microscopy,,,,,,,,,,,,,topic_0611,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bioimaging|topics|edam,,,,,,,,,,,,,,,, 217 | http://edamontology.org/topic_3382,Imaging,,,FALSE,,,http://edamontology.org/topic_0003,,,,,,,,,,,,,topic_3382,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bioimaging|topics|edam,,,,,,,,,,,,,,,, 218 | http://edamontology.org/topic_3385,Light microscopy,Fluorescence recovery after photobleaching|FRAP|Brightfield,,FALSE,,,http://edamontology.org/topic_Microscopy,,,,,,,,,,,,,topic_3385,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Fluorescence recovery after photobleaching|FRAP|Brightfield,,,bioimaging|topics|edam,,,,,,,,,,,,,,,, 219 | http://edamontology.org/topic_3444,Magnetic resonance imaging,MRI,,FALSE,,,http://edamontology.org/topic_3382,,,,,,,,,,,,,topic_3444,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,MRI,,,,bioimaging|topics|edam,,,,,,,,,,,,,,,, 220 | http://edamontology.org/topic_3452,Tomography,,,FALSE,,,http://edamontology.org/topic_3382,,,,,,,,,,,,,topic_3452,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bioimaging|topics|edam,,,,,,,,,,,,,,,, 221 | http://edamontology.org/topic_3474,Machine learning,Artificial intelligence,,FALSE,,,http://edamontology.org/topic_0003,,,,,,,,,,,,,topic_3474,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bioimaging|topics|edam,,,,,,,,,,,,,,,,Artificial intelligence 222 | http://edamontology.org/topic_Digital_histology,Digital histology,Digital pathology imaging,,FALSE,,,http://edamontology.org/topic_0003,,,,,,,,,,,,,topic_Digital_histology,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Digital pathology imaging,,,bioimaging|topics|edam,,,,,,,,,,,,,,,, 223 | http://edamontology.org/topic_Fluorescent_microscopy,Fluorescence microscopy,,,FALSE,,,http://edamontology.org/topic_3385,,,,,,,,,,,,,topic_Fluorescent_microscopy,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bioimaging|topics|edam,,,,,,,,,,,,,,,, 224 | http://edamontology.org/topic_High_content_screening,High content screening,HCS,,FALSE,,,http://edamontology.org/topic_0003,,,,,,,,,,,,,topic_High_content_screening,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,HCS,,,,bioimaging|topics|edam,,,,,,,,,,,,,,,, 225 | http://edamontology.org/topic_Light-sheet_microscopy,Light-sheet microscopy,LSFM|Digitally scanned Lightsheet Microscopy|Selective Plane Illumination Microscopy|Light-sheet fluorescence microscopy|DSLM|SPIM|Lattice Light-sheet Microscopy|Dual-View inverted SPIM|Spherical aberrations assisted Extended Depth-of-field Lightsheet Microscopy|Bessel Beam Lightsheet Microscopy|single objective Selective Plane Illumination Microscopy|Hardware implementations: multidirectional SPIM|LLSM|Clarity Optimized Lightsheet Microscopy|Multiview Selective Plane Illumination Microscopy|MuViSPIM|inverted SPIM|soSPIM|diSPIM|COLM|SPED|mSPIM|iSPIM,,FALSE,,,http://edamontology.org/topic__RBsSZve5PnQFO3scMDWo9f0|http://edamontology.org/topic__R7Vn7GbwtqVvGWNAMGdcNW1,,,,,,,,,,,,,topic_Light-sheet_microscopy,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,LSFM|Digitally scanned Lightsheet Microscopy|Selective Plane Illumination Microscopy|Light-sheet fluorescence microscopy|DSLM|SPIM,Lattice Light-sheet Microscopy|Dual-View inverted SPIM|Spherical aberrations assisted Extended Depth-of-field Lightsheet Microscopy|Bessel Beam Lightsheet Microscopy|single objective Selective Plane Illumination Microscopy|Hardware implementations: multidirectional SPIM|LLSM|Clarity Optimized Lightsheet Microscopy|Multiview Selective Plane Illumination Microscopy|MuViSPIM|inverted SPIM|soSPIM|diSPIM|COLM|SPED|mSPIM|iSPIM,,bioimaging|topics|edam,,,,,,,,,,,,,,,, 226 | http://edamontology.org/topic_Microscopy,Microscopy,Slide scanner,,FALSE,,,http://edamontology.org/topic_3382,,,,,,,,,,,,,topic_Microscopy,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Slide scanner,,,bioimaging|topics|edam,,,,,,,,,,,,,,,, 227 | http://edamontology.org/topic_Statistics,Statistics,,,FALSE,,,http://edamontology.org/topic_0003,,,,,,,,,,,,,topic_Statistics,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,bioimaging|topics|edam,,,,,,,,,,,,,,,, 228 | http://edamontology.org/topic_Super-resolution_microscopy,Super-resolution microscopy,palm|Photoactivated localization microscopy,,FALSE,,,http://edamontology.org/topic_Fluorescent_microscopy,,,,,,,,,,,,,topic_Super-resolution_microscopy,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,palm|Photoactivated localization microscopy,,,bioimaging|topics|edam,,,,,,,,,,,,,,,, 229 | http://edamontology.org/topic_Widefield_microscopy,Widefield microscopy,Widefield fluorescence microscopy|Epi-fluorescence microscopy|Epifluorescence microscopy,,FALSE,,,http://edamontology.org/topic_3385|http://edamontology.org/topic__RBsSZve5PnQFO3scMDWo9f0,,,,,,,,,,,,,topic_Widefield_microscopy,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,Widefield fluorescence microscopy|Epi-fluorescence microscopy|Epifluorescence microscopy,,,bioimaging|topics|edam,,,,,,,,,,,,,,,, 230 | --------------------------------------------------------------------------------