18 Feb
2014
18 Feb
'14
10:36 a.m.
Hello I would like to disable seeding when doing a sequence mapping using bwa. Apparently, this is commonly performed using the aln -l option set at a value higher than the read length, and is often set at values above 1000. In Galaxy, the default option is -1 for this parameter, and it is indicated that -1 corresponds to infinity. Does that mean that seeding can be disabled using -1, and that it is disabled by default on Galaxy? I don't obtain exactly the same thing using -1 or 16000 for this parameter, even though the difference is marginal. Thanks for your insights Thierry Institut Jacques MONOD Paris