Difference between revisions of "C++ Library: libStatGen"
From Genome Analysis Wiki
Jump to navigationJump to search| Line 1: | Line 1: | ||
== DESCRIPTION == | == DESCRIPTION == | ||
| − | + | Open source, freely available (GPL license), easy to use APIs | |
*File/Stream I/O – uncompressed, BGZF, GZIP, stdin, stdout | *File/Stream I/O – uncompressed, BGZF, GZIP, stdin, stdout | ||
*Common file formats – SAM/BAM, FASTQ, GLF | *Common file formats – SAM/BAM, FASTQ, GLF | ||
Revision as of 13:33, 29 October 2010
DESCRIPTION
Open source, freely available (GPL license), easy to use APIs
- File/Stream I/O – uncompressed, BGZF, GZIP, stdin, stdout
- Common file formats – SAM/BAM, FASTQ, GLF
- Indexed access to BAM files
- Accessors to get/set values
- Utility classes, including:
- Cigar – interpretation and mapping between query and reference
- Pileup – structured access to data by individual reference position
Contents
- StatGenLibrary: general - General classes for file processing and performing common tasks (used by most other libraries).
- StatGenLibrary: BAM - Classes specific for reading/writing/analyzing SAM/BAM files.
- StatGenLibrary: GLF - Classes specific for reading/writing/analyzing GLF files.
- StatGenLibrary: FASTQ - Classes specific for reading/writing/analyzing FastQ files.
Download
To use the StatGenLibrary, first download:
