├── .dockerignore ├── .gitignore ├── .travis.yml ├── Dockerfile ├── LICENSE ├── README.md ├── demo ├── data │ └── marker_matrix_gene.csv ├── img2path.ipynb └── microbiologist-clinician.ipynb ├── docs ├── Makefile ├── analysis.html ├── build │ ├── _sources │ │ ├── analysis.rst.txt │ │ ├── content.rst.txt │ │ ├── index.rst.txt │ │ └── utils.rst.txt │ ├── _static │ │ ├── alabaster.css │ │ ├── basic.css │ │ ├── custom.css │ │ ├── doctools.js │ │ ├── documentation_options.js │ │ ├── file.png │ │ ├── jquery-3.4.1.js │ │ ├── jquery-3.5.1.js │ │ ├── jquery.js │ │ ├── language_data.js │ │ ├── minus.png │ │ ├── plus.png │ │ ├── pygments.css │ │ ├── searchtools.js │ │ ├── underscore-1.3.1.js │ │ └── underscore.js │ └── html │ │ ├── .buildinfo │ │ ├── _sources │ │ ├── analysis.rst.txt │ │ ├── content.rst.txt │ │ ├── index.rst.txt │ │ └── utils.rst.txt │ │ └── _static │ │ ├── alabaster.css │ │ ├── basic.css │ │ ├── custom.css │ │ ├── doctools.js │ │ ├── documentation_options.js │ │ ├── file.png │ │ ├── jquery-3.4.1.js │ │ ├── jquery-3.5.1.js │ │ ├── jquery.js │ │ ├── language_data.js │ │ ├── minus.png │ │ ├── plus.png │ │ ├── pygments.css │ │ ├── searchtools.js │ │ ├── underscore-1.3.1.js │ │ └── underscore.js ├── content.html ├── genindex.html ├── index.html ├── make.bat ├── objects.inv ├── py-modindex.html ├── search.html ├── searchindex.js ├── source │ ├── analysis.rst │ ├── conf.py │ ├── content.rst │ ├── index.rst │ └── utils.rst ├── sources │ ├── analysis.rst.txt │ ├── content.rst.txt │ ├── index.rst.txt │ └── utils.rst.txt ├── static │ ├── alabaster.css │ ├── basic.css │ ├── custom.css │ ├── doctools.js │ ├── documentation_options.js │ ├── file.png │ ├── jquery-3.4.1.js │ ├── jquery-3.5.1.js │ ├── jquery.js │ ├── language_data.js │ ├── minus.png │ ├── plus.png │ ├── pygments.css │ ├── searchtools.js │ ├── underscore-1.3.1.js │ └── underscore.js └── utils.html ├── reactome2py ├── __init__.py ├── analysis.py ├── content.py └── fiviz.py ├── setup.py └── tests └── unit ├── 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