[Bioc-sig-seq] qa from ShortRead

Kunbin Qu KQu at genomichealth.com
Tue Nov 2 17:08:43 CET 2010

Hi, all:

I have a question about the qa function in ShortRead. I have some fastq sequences with an offset of 33 to encode the quality scores.  As far as I understand Illumina's encoding uses an offset of 64. The quality score vs cycle plot generated from the "qa" seems a little low. Is there a way to adjust the offset in qa? Thanks.


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