├── .gitattributes ├── .travis.yml ├── LICENSE.txt ├── README.md ├── example ├── example.E ├── example.config ├── example.tf_dna ├── exampleRun.py ├── example_out │ ├── example.E.html │ ├── example.E.json │ ├── parseJSON.js │ └── style.css └── moduleTestExample.py ├── images ├── FlowChart1.jpg ├── MBE2.tsne.png ├── cellplots.png ├── diffusion_map.png ├── downloadconfig.png ├── example_out.png ├── explorede.png ├── exploretf.png ├── geneconfig.png ├── globalconfig.png └── tfconfig.png ├── scdiff ├── ClusteringMetric.py ├── Distance.py ├── File.py ├── KF2.py ├── StatTest.py ├── __init__.py ├── img │ └── logo.gif ├── scdiff.py ├── scdiff_gui.py ├── tfdata │ └── HumanTFList.txt └── viz.py ├── setup.cfg ├── setup.py ├── tf_dna ├── Human_TF_targets.txt └── Mouse_TF_targets.txt ├── tf_list └── Human_mouse_TFList.txt └── utils ├── filterGenes.py ├── guessRootCells.py └── semiAutomaticK.py /.gitattributes: -------------------------------------------------------------------------------- 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