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Old 05-14-2010, 12:42 AM   #1
Location: Pune, India

Join Date: Apr 2008
Posts: 21
Default Quality filtering

What kind of trimming and/or quality filter do you use before mapping reads? Are there any commonly used filtering criteria? I am using Q>15 and number of bases allowed outside this set at 6, for 32 bp reads (4 bases trimmed from the 3' end). This leaves me with around 15% of the total reads.
Farhat Habib
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