Jonn Smith
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Activity overview
Latest activity by Jonn Smith-
Jonn Smith commented,
Lim Chen We recommend that people create new posts in the general comments section for support questions. That said, I'm guessing your VCF is aligned to HG19 / B37. VCF files have header rows in t...
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Jonn Smith commented,
Just seeing this now. Here are up-to-date links since I cannot readily edit this article: https://gatk.broadinstitute.org/hc/en-us/articles/360035889931-Funcotator-Information-and-Tutorial https:...
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Jonn Smith commented,
A little while ago we migrated our data to different locations. https://storage.cloud.google.com/genomics-public-data/references/b37/Homo_sapiens_assembly19.fasta.gz We no longer have a fasta ...
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Jonn Smith commented,
Official comment Tjitske - I responded to your github post, but in case you didn't see it: @Tjitskedv Typically we ask people make a new issue in github or create a forum post, rather than commenting on open pull...
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Jonn Smith commented,
It's still something I want to do, but I haven't been able to follow-up yet. I'll update this post as soon as I do.
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Jonn Smith commented,
Maximilian Haeussler Ah. I just looked and it looks like the link I put for GRCh37.p13 is not correct for the file I have. I will have to look into where the copy I have came from. As for the seq...
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Jonn Smith commented,
As an aside, the discussion here is exactly why I wanted to document these differences - everyone seems to have their favorite HG19 / GRCh37 assembly and they're not always 100% compatible. This i...
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Jonn Smith commented,
@W_Maier - Responses follow, but briefly - you seem to be using a different file for your comparisons than the ones I used above. 1) The comparisons are correct as posted, and are derived directly...