diff options
Diffstat (limited to 'academic/samtools-legacy/README')
| -rw-r--r-- | academic/samtools-legacy/README | 28 |
1 files changed, 28 insertions, 0 deletions
diff --git a/academic/samtools-legacy/README b/academic/samtools-legacy/README new file mode 100644 index 0000000000..e80e4d5c8e --- /dev/null +++ b/academic/samtools-legacy/README @@ -0,0 +1,28 @@ +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. + +SAM Tools provide various utilities for manipulating alignments in the +SAM format, including sorting, merging, indexing and generating +alignments in a per-position format. + +NOTE! +This is an older version of the program, kept here for compatibility +with Ugene. You can safely install it along the new one. When you start +Ugene, go to Settings > Preferences > External Tools and manually select +the legacy binaries in /usr/bin/ + +Publication: +Li H.*, Handsaker B.*, Wysoker A., Fennell T., Ruan J., Homer N., +Marth G., Abecasis G., Durbin R. and 1000 Genome Project Data +Processing Subgroup (2009) The Sequence alignment/map (SAM) format and +SAMtools. Bioinformatics, 25, 2078-9. [PMID: 19505943] |