Question: Disable Seeding Using Galaxy
0
Thierry Grange • 10 wrote:
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
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modified 4.8 years ago
by
Jennifer Hillman Jackson ♦ 25k
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written
4.8 years ago by
Thierry Grange • 10
