SSAHA2

• (Sequence Search and Alignment by Hashing Algorithm) is a pairwise sequence alignment program designed for the efficient mapping of sequencing reads onto genomic reference sequences.

SSAHA2 reads of most sequencing platforms (ABI-Sanger, Roche 454, Illumina-Solexa) and a range of output formats (SAM, CIGAR, PSL etc.) are supported. A pile-up pipeline for analysis and genotype calling is available as a separate package.

Categories

Bioinformatics

Versions

• Linux 32: 2.5.3
• Linux 64: 2.5.3
• OSX Intel: 2.5.1

Citations

Ning et al. SSAHA: a fast search method for large DNA databases. Genome research 2001. 11(10):1725-9.

License Type

This software is distributed under an Open license.