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samtools-software

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samtools

samtools provide various utilities for manipulating alignments in the SAM format, including sorting, merging, indexing and generating alignments in a per-position format.

Usage

Show all available versions of samtools:

$ module avail samtools

Load a particular version of samtools:

$ module load samtools/1.2

Installation

Notes from the sysadmin during installation:

$ git clone git@github.com:samtools/htslib.git
$ git clone git@github.com:samtools/samtools.git
$ cd samtools
$ git checkout 1.2
$ sudo mkdir -p /export/apps/samtools/1.2/
$ sudo chown joguya:joguya /export/apps/samtools/1.2/
$ make
$ make prefix=/export/apps/samtools/1.2/ install
$ sudo chown -R root:root /export/apps/samtools/1.2/
samtools-software.1433868095.txt.gz · Last modified: 2015/06/09 16:41 by aorth