[Automated-sequencing] quality scores using consed/phrap/phred
Sampson, Joshua (NIH/NCI) [E]
(by Joshua.Sampson from nih.gov)
Thu Oct 22 09:09:17 EST 2009
Let me open with the standard disclaimor that I'm new to these packages and therefore apologize if i'm submitting an obvious question.
I have received a set off .SFF files that I would like to process/align.
Running consed gives me an .ace file with fragments and their starting points in the reference sequence. This is great.
However, I would also like the quality score for every base in every fragment (not just the consensus sequence). If I had chromat files, I could see how to do this with Phred. However, all I have is the .SFF files. Any suggestions on how to get the Phred Quality Scores for the fragements?
Any help would be greatly appreciated.
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