├── .gitignore ├── .gitmodules ├── .travis.yml ├── LICENSE ├── Makefile.am ├── Makefile.in ├── R └── BamQCPlot.R ├── README.md ├── autogen.sh ├── config.h.in ├── configure ├── configure.ac ├── depcomp ├── examples ├── example.bed ├── example.sh ├── example1.json ├── example2.json ├── example3.json ├── example4.json ├── example6.json └── rules.json ├── install-sh ├── missing ├── src ├── BamStats.cpp ├── BamStats.h ├── CommandLineRegion.h ├── Histogram.cpp ├── Histogram.h ├── Makefile.am ├── Makefile.in ├── STCoverage.cpp ├── STCoverage.h ├── VariantBamWalker.cpp ├── VariantBamWalker.h └── variant.cpp ├── test.vcf └── test ├── Makefile.am ├── Makefile.in ├── config.h ├── config.h.in ├── configure ├── configure.ac ├── motifs.txt ├── small.bam.bai ├── test.vcf ├── variant_test.cpp └── variant_test_main.cpp /.gitignore: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/walaj/VariantBam/HEAD/.gitignore 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