3 ms·
You are probably thinking of Smith-Waterman: http://en.wikipedia.org/wiki/Smith%E2%80%93Waterman_algorithm http://en.wikipedia.org/wiki/Smith%E2%80%93Waterman_
by ahelwer 15y ago
You are probably thinking of Smith-Waterman:
http://en.wikipedia.org/wiki/Smith%E2%80%93Waterman_algorithm http://en.wikipedia.org/wiki/Smith%E2%80%93Waterman_algorith...
Company I work at (in HPC) was in negotiations to implement it for one of those big plant biotech firms long before I was around, or so I have been told.
- epistasis 15y agoSmith-Waterman is the gold standard, but it's too slow for most applications so many heuristics have been developed. BWA is the most popular tool these days for short-read mapping, and has a Smith-Waterman based approach for long reads as well: http://bio-bwa.sourceforge.net/bwa.shtml http://bio-bwa.sourceforge.net/bwa.shtml