Hi, I'm trying to assemble Illumina paired sequence which is at least
15x deep to the Arabidopsis genome (TAIR 10 version) using Map with
Bowtie for Illumina (version 1.1.2) but try as I might with changing all
the parameters in different ways to reduce stringency I am still getting
a lot of gaps i
Hi Marc,
Yes, if you change "Bowtie settings to use" from common to full, you'll see the
entire parameter list, including "Number of mismatches for SOAP-like alignment
policy (-v):"
-Dannon
On Oct 27, 2011, at 8:40 AM, KNIGHT M.R. wrote:
> Hi, is it possible to run Map with Bowtie for Illumin
Hi, is it possible to run Map with Bowtie for Illumina (version 1.1.2)
in -v alignment mode/ If so, what settings do I need to enter? Many
thanks, Marc.
***
Professor Marc R. Knight,
Director,
Durham Centre for Crop Improvement Technology,
School of Biological and Biomedical Sciences,
Durh
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