Question: Loading VCF into a local IGV fails with metadata error during data prep step
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kry_8 • 10 wrote:
Although my genome sequence is part of the list of options thanks to custom build, the link to display the results is not being updated. I was wondering if this is because I am not limiting the search to a specific part of the genome and instead I am trying to see all the variants in IGV. In the past, I have done only with the BWA-MEM file and then looking at it in IGV and look for the variants manually. I thought with FreeBayes and Variant Filter I would be able to see the variants only. Is it possible or is it only possible for a selected region of the genome? Thanks!
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modified 10 months ago
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Jennifer Hillman Jackson ♦ 25k
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10 months ago by
kry_8 • 10
Yes, all of this should be possible (full genome loaded into IGV, VCF display [including filtered], Custom genome/build, etc).
There were some server issues over the weekend in the process of being corrected. These might be impacting the IGV local display function. Once done, I'll see if I can reproduce the issue. More feedback soon.