├── .gitignore ├── .travis.yml ├── LICENSE ├── README.rst ├── docs ├── SVIM_Workflow.pdf ├── SVIM_Workflow.png └── SVclasses.png ├── setup.py └── src ├── svim ├── SVCandidate.py ├── SVIM_CLUSTER.py ├── SVIM_COLLECT.py ├── SVIM_COMBINE.py ├── SVIM_alignment.py ├── SVIM_clustering.py ├── SVIM_genotyping.py ├── SVIM_input_parsing.py ├── SVIM_inter.py ├── SVIM_intra.py ├── SVIM_merging.py ├── SVIM_plot.py ├── SVSignature.py ├── __init__.py └── svim └── tests ├── __init__.py ├── chimeric_read.sam ├── test_Collect.py ├── test_SVCandidate.py ├── test_Signature.py ├── test_clustering.py ├── test_consensus.py ├── test_input_parsing.py ├── test_inter.py ├── test_intra.py └── test_satag.py /.gitignore: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/eldariont/svim/HEAD/.gitignore -------------------------------------------------------------------------------- /.travis.yml: 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