sam-file
There are 3 repositories under sam-file topic.
BioJulia/ReadDatastores.jl
Datastores for reads, not your papa's FASTQ files.
adamff-dev/SAM_Retrieve
This script retrieves the SAM and SYSTEM files, using the reg command.
laurentnoe/storm
Illumina (and SOLiD) sensitive read mapping tool (cloned from svn://scm.gforge.inria.fr/svnroot/storm/, original code from @marta- , with some work done by @yoann-dufresne)