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, Durham University, South Road, Durham DH1 3LE. Tel: +44 191 33 41224 Fax: +44 191 33 41201 Website: http://www.dur.ac.uk/dccit/ ***
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 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, Durham University, South Road, Durham DH1 3LE. Tel: +44 191 33 41224 Fax: +44 191 33 41201 Website: http://www.dur.ac.uk/dccit/
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Dannon Baker -
KNIGHT M.R.