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-   -   Run maq on solexa data with simulated qual scores (http://seqanswers.com/forums/showthread.php?t=1799)

AnamikaDarwin 05-22-2009 10:52 AM

Run maq on solexa data with simulated qual scores
 
Hello,

I have single-end solexa reads, wherein the qual scores are the same for every base. I would like to be able to run maq map on this data. With the default options, I am not getting any alignments at all. Can anyone suggest what parameters I could possibly tweak?

Thanks,
Mika


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