C libraries for the High Performance Genomics (HPG) project:
- aligners: HPC implementation of two widely used sequence aligners: Burrows-Whheler Transform (BWT) and Smith-Waterman (SW)
- bioinfo-libs: several data format parsers: gff, bam, vcf, bed, ...
- common-libs: several common utilities for logs, string manipulation, workflows execution, ...
- containers: several data structures : array_list, linked_list, ... other have been collected from different sources such as cprops or khash.
- math: Statistics and algebra functions
Each library must be compiled independently using SCons. A static library file (.a) will be generated as a result in c/build/ folder.
BUILDING Scons is used as building system, to build the library download 'next' branch (for the most recent library), and execute:
$ scons
GCC4.4+ is the only requirement.
DOCUMENTATION You can find more info about HPG project and bioinfo-libs at:
http://wiki.opencb.org/projects/hpg/doku.php
CONTACT You can contact any of the following developers:
- Joaquin Tarraga ([email protected])
- Cristina Y. Gonzalez ([email protected])
- Ignacio Medina ([email protected])
- Hector Martinez ([email protected])