Samuel Terkper Ahuno
Posts
Recent activity by Samuel Terkper Ahuno
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Do you want to abort this job? Y/N
Dear Terra Support, please could you make `Abort` a two step process and the option of checking `don't ask me again?` i think i mistakenly aborted some jobs. thanks S
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- 2 followers
- 1 comment
- 1 vote
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cnv-somatic workflow not compatible with gatk latest versions (4.1.7.0 above)
Hi, Has anyone had success running cnv-somatic workflow with latest versions of gatk? fails at `PlotDenoisedCopyRatiosNormal` Task when run with docker gatk 4.1.8.1 , 4.1.8.0 & 4.1.7.0 Error; CNVSo...
- 2 followers
- 7 comments
- 0 votes
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GenotypeGVCFs error; A USER ERROR has occurred: use-new-qual-calculator is not a recognized option
Hello Terra, I am running JointCalling on Whole Exome samples using clone of this workflow however the GenotypeGVCFs tasks keeps failing with this error in all the shards; `A USER ERROR has occur...
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- 2 comments
- 0 votes
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are there Alternatives for JointCalling (Germline variant calling) for <50 samples?
Dear Terra, are there any recommendations for running JointCalling for <50 samples (41)? https://app.terra.bio/#workspaces/help-gatk/GATK4-Germline-Preprocessing-VariantCalling-JointCalling my w...
- 2 followers
- 4 comments
- 0 votes
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Can I create Mutet2 PON with hg38 instead of hg19?
Dear Terra, is there any PON/Mutect workflow that uses the hg38 human genome reference other than hg19 required by these gatk workflows? https://app.terra.bio/#workspaces/help-gatk/Somatic-SNVs-Ind...
- 2 followers
- 1 comment
- 0 votes
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can you recommend a great tutorial on "processing-for-variant-discovery-gatk4" with different read groups/lanes on terra?
Please can someone recommend any walk through/ great tutorial on "processing-for-variant-discovery-gatk4" with multiple read groups on terra? I have seen the workflow in terra but I'm not sure I un...
- 2 followers
- 1 comment
- 0 votes