SAM Tools provide various utilities for manipulating alignments in the SAM format, including sorting, merging, indexing and generating alignments in a per-position format. SAM (Sequence Alignment/Map) format is a generic format for storing large nucleotide sequence alignments. SAM aims to be a format that:
- Is flexible enough to store all the alignment information generated by various alignment programs;
- Is simple enough to be easily generated by alignment programs or converted from existing alignment formats;
- Is compact in file size;
- Allows most of operations on the alignment to work on a stream without loading the whole alignment into memory;
- Allows the file to be indexed by genomic position to efficiently retrieve all reads aligning to a locus.
Verze 0.1.18, 0.1.19, 1.2, 1.3, 1.3.1 and 1.4. Available modules:
samtools-0.1.18 samtools-0.1.18alt samtools-0.1.19 samtools-0.1.19fPIC samtools-1.2 samtools-1.3 samtools-1.3.1 samtools-1.4 samtools-1.6
module add samtools-1.3.1 samtools
for more details see Documentation. Module samtools-0.1.18alt is compiled with -fPIC.
The MIT/Expat License