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Forum: Bioinformatics 08-11-2010, 09:44 AM
Replies: 1
Views: 3,695
Posted By lazyworm
Wink Hiseq 2000 paired-end capture data analysis problem-too many variants!

We are trying to analysis a Hiseq 2000 paired-end whole exome capture sequencing data. The quality of the data is very good. We get an average depth of coverage around 120x. The fastq files...
Forum: Bioinformatics 05-27-2010, 07:11 PM
Replies: 2
Views: 3,703
Posted By lazyworm
How is SNP quality calculated in SAMTOOLS pileup?

Hi all,
I just wonder how is SNP quality (column 5) in SAMTOOLS pileup file calculated. I have googled for a long time without success. If you know where I can find a clear description about SNP...
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