SAM format is a generic format for storing large nucleotide sequence alignments. SAMtools provide various utilities for manipulating alignments in the SAM format, including sorting, merging, indexing and generating alignments in a per-position format.
The following versions of SAMtools are available on OSC clusters:
| Version | Owens | Pitzer | Cardinal |
|---|---|---|---|
| 1.3.1 | X | ||
| 1.6 | X | ||
| 1.8 | X | ||
| 1.9 | X | ||
| 1.10 | X* | X* | |
| 1.16.1 | X | X | |
| 1.17 | X |
You can use module spider samtools to view available modules for a given machine. Feel free to contact OSC Help if you need other versions for your work.
SAMtools is available to all OSC users. If you have any questions, please contact OSC Help.
Genome Research Ltd., Open source
module load samtools . The default version will be loaded. To select a particular SAMtools version, use module load samtools/version . For example, use module load samtools/1.3.1 to load SAMtools 1.3.1.module load samtools . The default version will be loaded.