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!
Launching IGV is successful again now for most datatypes. I found one new problem with VCF dataset loading and am testing a few more use-case.
You could try again now as well. Should that fail, then we will need to fix the loading issues on our side before you can visualize in IGV.
Progress on the tests/corrections will post back to the tracking ticket: https://github.com/galaxyproject/usegalaxy-playbook/issues/89
Thanks for reporting the problem!
Jen, Galaxy team