├── .gitignore ├── README.rst ├── data ├── test_data └── test_idx ├── doc ├── poster.pdf ├── poster.png ├── poster.svg ├── poster.svg.2010_12_13_20_39_43.0.svg └── poster.svg.2010_12_14_03_01_15.0.svg ├── src ├── bowtie.py ├── bwt.py ├── bwt_unittest.py ├── fm-build.py ├── fm-search.py ├── fmindex.py └── suffixtree.py └── test.sh /.gitignore: -------------------------------------------------------------------------------- 1 | *.pyc 2 | -------------------------------------------------------------------------------- /README.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/egonelbre/fm-index/HEAD/README.rst -------------------------------------------------------------------------------- /data/test_data: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/egonelbre/fm-index/HEAD/data/test_data -------------------------------------------------------------------------------- /data/test_idx: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/egonelbre/fm-index/HEAD/data/test_idx -------------------------------------------------------------------------------- /doc/poster.pdf: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/egonelbre/fm-index/HEAD/doc/poster.pdf -------------------------------------------------------------------------------- /doc/poster.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/egonelbre/fm-index/HEAD/doc/poster.png -------------------------------------------------------------------------------- /doc/poster.svg: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/egonelbre/fm-index/HEAD/doc/poster.svg -------------------------------------------------------------------------------- /doc/poster.svg.2010_12_13_20_39_43.0.svg: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/egonelbre/fm-index/HEAD/doc/poster.svg.2010_12_13_20_39_43.0.svg -------------------------------------------------------------------------------- /doc/poster.svg.2010_12_14_03_01_15.0.svg: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/egonelbre/fm-index/HEAD/doc/poster.svg.2010_12_14_03_01_15.0.svg -------------------------------------------------------------------------------- /src/bowtie.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/egonelbre/fm-index/HEAD/src/bowtie.py -------------------------------------------------------------------------------- /src/bwt.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/egonelbre/fm-index/HEAD/src/bwt.py -------------------------------------------------------------------------------- /src/bwt_unittest.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/egonelbre/fm-index/HEAD/src/bwt_unittest.py -------------------------------------------------------------------------------- /src/fm-build.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/egonelbre/fm-index/HEAD/src/fm-build.py -------------------------------------------------------------------------------- /src/fm-search.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/egonelbre/fm-index/HEAD/src/fm-search.py -------------------------------------------------------------------------------- /src/fmindex.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/egonelbre/fm-index/HEAD/src/fmindex.py -------------------------------------------------------------------------------- /src/suffixtree.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/egonelbre/fm-index/HEAD/src/suffixtree.py -------------------------------------------------------------------------------- /test.sh: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/egonelbre/fm-index/HEAD/test.sh --------------------------------------------------------------------------------