From: Joseph F. <jos...@gm...> - 2010-09-28 16:31:08
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what about tview?.. it's a samtools tool, so comparing how it sees this region (that samtools pileup seems to be doing funny things with) to IGV might be interesting? On Sep 28, 2010 8:20 AM, "Cliff Yiu" <mm...@ho...> wrote: it is Illlumina GAIIx, SE76, BWA mapping, SAMtools SNP-calling. IGV showed the total count for this position is about 100 rather than 822. It looks like in IGV there are lots of deletion in those reads for this position. ________________________________ From: jos...@gm... Date: Mon, 27 Sep 2010 13:10:35 -0700 Subject: Re: [Samtools-help] SAMtools pileup file contains lots of "*" To: mm...@ho... CC: ... |