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can not find/display variants which observed in IGV #9
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it would be easier to find the problem if you provide some minimum demo data to reproduce your case. I guess low base/mapping quality, orphan read, and too much depth could be common reasons. |
Thanks for the reply. |
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Hi,
Thanks for providing mutscan, which is fast enough to generally find the mutations.
However, I find it hard to display the variants that are already observed in IGV, mapped using raw reads. There are 10000x reads for wild-type, and 11 (6+, 5-) for mutant allele.
It will be great if you can share some experience.
Thanks
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