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Forum: Bioinformatics 08-08-2009, 04:30 PM
Replies: 3
Views: 1,352
Posted By nilshomer
Looks like the "-n" option can only range from...

Looks like the "-n" option can only range from 0-3.
-n/--seedmms <int> max mismatches in seed (can be 0-3, default: -n 2)

PM Ben Langmead or post a new thread asking how to do this with...
Forum: Bioinformatics 08-08-2009, 01:50 PM
Replies: 3
Views: 1,352
Posted By nilshomer
You will have to use a different aligner. ...

You will have to use a different aligner. Aligners like BFAST, BWA, bowtie, etc (bowtie is not for SOLiD) will allow you to up the sensitivity at the expense of speed.
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