├── .gitignore ├── .travis.yml ├── AGEpy ├── AGEpy.py ├── __init__.py ├── bed.py ├── biom.py ├── blast.py ├── cytoscape.py ├── david.py ├── fasta.py ├── genomes.py ├── geo.py ├── go.py ├── gtf.py ├── homology.py ├── kegg.py ├── meme.py ├── plots.py ├── rbiom.py ├── sam.py ├── sra.py └── utils.py ├── Dockerfile ├── LICENSE ├── README.md ├── README.rst ├── bin ├── QC_plots ├── aDiff ├── abed ├── blasto ├── david ├── genomes └── obo2tsv ├── conf.py ├── docs ├── .DS_Store ├── cookbook.md ├── executables │ ├── abed.md │ ├── adiff.md │ ├── blasto.md │ ├── david.md │ └── obo2tsv.md ├── index.md └── modules │ ├── MA1.png │ ├── MA2.png │ ├── MA3.png │ ├── bed.md │ ├── biom.md │ ├── blast.md │ ├── cellplot.CellPlot.png │ ├── cytoscape.md │ ├── david.md │ ├── fasta.md │ ├── go.md │ ├── gtf.md │ ├── homology.md │ ├── kegg.md │ ├── meme.md │ ├── p53.png │ ├── plots.md │ ├── sam.md │ └── symplot.SymPlot.png ├── index.html ├── mkdocs.yml ├── requirements.txt └── setup.py /.gitignore: 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