SNP-o-matic
SNP-o-matic is a fast, stringent short-read mapping software.
It supports a multitude of output types and formats, for uses in filtering reads, alignments, sequence-based genotyping calls, assisted reassembly of contigs etc.
Downloads
Code is on GitHub.
Further information
License is GPL V3+
Sanger Institute Contributors
Dr Magnus Manske
Principal Software Developer