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Release notes:

SSAKE 3.2 adjusts contig ends to find new extension possibilities. A bug that prevented SSAKE from exploring the entire read space for contig extensions seeded by shorter reads has been FIXED. The new option (-t) will allow contig trimming in 3', one base at a time until a maximum base trim value (-t) is reached. This option yields longer contigs, but increases assembly run time and, at high -t values, might introduce contig misassemblies if your other run parameters (i.e. -m, -o and -r) are not stringent enough. At -m 16 -o 3 -r 0.7, best results were obtained at -t 1. That's because it removes bases that cause premature breaks during the fragment assembly. If set, end-trimming kicks in only when all possibilities have been exhausted for a contig extension. This release also fixes a major bug that prevented SSAKE from exploring the entire read space for contig extensions seeded by shorter reads.

Release notes:

This is the current v3.2 release -use instead. For other releases, go to: http://www.bcgsc.ca/platform/bioinfo/software/ssake