├── .github └── workflows │ └── dev.yml ├── .readthedocs.yaml ├── License.txt ├── README.md ├── datasets └── demoMovie.tif ├── demos └── official_demo.ipynb ├── docs ├── Makefile ├── make.bat ├── requirements.in ├── requirements.txt └── source │ ├── Algo.rst │ ├── Summary.rst │ ├── _static │ └── .gitkeep │ ├── _templates │ └── .gitkeep │ ├── api.rst │ ├── conf.py │ ├── images │ ├── 1p_HP_Filter.png │ ├── MotionCorrectionWorkflow.png │ └── PWRIGID_FOV.png │ ├── index.rst │ ├── jnormcorre.rst │ ├── jnormcorre.utils.rst │ └── modules.rst ├── jnormcorre ├── __init__.py ├── motion_correction.py ├── simulation.py ├── spatial_filters.py └── utils │ ├── __init__.py │ ├── lazy_array.py │ └── registrationarrays.py ├── setup.py └── test └── test_motion_correction.py /.github/workflows/dev.yml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/apasarkar/jnormcorre/HEAD/.github/workflows/dev.yml -------------------------------------------------------------------------------- /.readthedocs.yaml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/apasarkar/jnormcorre/HEAD/.readthedocs.yaml -------------------------------------------------------------------------------- /License.txt: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/apasarkar/jnormcorre/HEAD/License.txt -------------------------------------------------------------------------------- /README.md: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/apasarkar/jnormcorre/HEAD/README.md -------------------------------------------------------------------------------- /datasets/demoMovie.tif: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/apasarkar/jnormcorre/HEAD/datasets/demoMovie.tif -------------------------------------------------------------------------------- /demos/official_demo.ipynb: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/apasarkar/jnormcorre/HEAD/demos/official_demo.ipynb -------------------------------------------------------------------------------- /docs/Makefile: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/apasarkar/jnormcorre/HEAD/docs/Makefile -------------------------------------------------------------------------------- /docs/make.bat: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/apasarkar/jnormcorre/HEAD/docs/make.bat -------------------------------------------------------------------------------- /docs/requirements.in: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/apasarkar/jnormcorre/HEAD/docs/requirements.in -------------------------------------------------------------------------------- /docs/requirements.txt: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/apasarkar/jnormcorre/HEAD/docs/requirements.txt -------------------------------------------------------------------------------- /docs/source/Algo.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/apasarkar/jnormcorre/HEAD/docs/source/Algo.rst -------------------------------------------------------------------------------- /docs/source/Summary.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/apasarkar/jnormcorre/HEAD/docs/source/Summary.rst -------------------------------------------------------------------------------- /docs/source/_static/.gitkeep: -------------------------------------------------------------------------------- 1 | -------------------------------------------------------------------------------- /docs/source/_templates/.gitkeep: -------------------------------------------------------------------------------- 1 | -------------------------------------------------------------------------------- /docs/source/api.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/apasarkar/jnormcorre/HEAD/docs/source/api.rst -------------------------------------------------------------------------------- /docs/source/conf.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/apasarkar/jnormcorre/HEAD/docs/source/conf.py -------------------------------------------------------------------------------- /docs/source/images/1p_HP_Filter.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/apasarkar/jnormcorre/HEAD/docs/source/images/1p_HP_Filter.png -------------------------------------------------------------------------------- /docs/source/images/MotionCorrectionWorkflow.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/apasarkar/jnormcorre/HEAD/docs/source/images/MotionCorrectionWorkflow.png -------------------------------------------------------------------------------- /docs/source/images/PWRIGID_FOV.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/apasarkar/jnormcorre/HEAD/docs/source/images/PWRIGID_FOV.png -------------------------------------------------------------------------------- /docs/source/index.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/apasarkar/jnormcorre/HEAD/docs/source/index.rst -------------------------------------------------------------------------------- /docs/source/jnormcorre.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/apasarkar/jnormcorre/HEAD/docs/source/jnormcorre.rst -------------------------------------------------------------------------------- /docs/source/jnormcorre.utils.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/apasarkar/jnormcorre/HEAD/docs/source/jnormcorre.utils.rst -------------------------------------------------------------------------------- /docs/source/modules.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/apasarkar/jnormcorre/HEAD/docs/source/modules.rst -------------------------------------------------------------------------------- /jnormcorre/__init__.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/apasarkar/jnormcorre/HEAD/jnormcorre/__init__.py -------------------------------------------------------------------------------- /jnormcorre/motion_correction.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/apasarkar/jnormcorre/HEAD/jnormcorre/motion_correction.py -------------------------------------------------------------------------------- /jnormcorre/simulation.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/apasarkar/jnormcorre/HEAD/jnormcorre/simulation.py -------------------------------------------------------------------------------- /jnormcorre/spatial_filters.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/apasarkar/jnormcorre/HEAD/jnormcorre/spatial_filters.py -------------------------------------------------------------------------------- /jnormcorre/utils/__init__.py: -------------------------------------------------------------------------------- 1 | -------------------------------------------------------------------------------- /jnormcorre/utils/lazy_array.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/apasarkar/jnormcorre/HEAD/jnormcorre/utils/lazy_array.py -------------------------------------------------------------------------------- /jnormcorre/utils/registrationarrays.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/apasarkar/jnormcorre/HEAD/jnormcorre/utils/registrationarrays.py -------------------------------------------------------------------------------- /setup.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/apasarkar/jnormcorre/HEAD/setup.py -------------------------------------------------------------------------------- /test/test_motion_correction.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/apasarkar/jnormcorre/HEAD/test/test_motion_correction.py --------------------------------------------------------------------------------