
MPetlj
- Total activity 66
- Last activity
- Member since
- Following 0 users
- Followed by 0 users
- Votes 1
- Subscriptions 6
Posts
Recent activity by MPetlj Sort by recent activity-
Mutect errors
Hello, I used Mutect2 Terra workflow to successfully call mutations in 232/241 samples. Mutect2 version: mutect2:4.1.6.0 JobID: 45b78f7b-c418-47b5-bc64-f729602e6679 JobHistory: https://app.terra....
-
Funcotator errors
Hello, I am trying to use the Funcotator workflow in Terra https://dockstore.org/workflows/github.com/broadinstitute/gatk/Funcotator:4.1.7.0 To annotate a VCF that was produced by the Mutect2_pon w...
-
Mutect2 output - resources?
Hello, I recently ran mutect2:4.1.6.0 workflow in Terra. I was wondering what is the best resource to read about the various output files produced, as well as the filtering strategies used to gener...
-
Mutect2-PON Storage object issue when running across multiple samples?
GATK version used : 4.1.6.0 Hello, I am getting the following error when running the Mutect2_pon workflow across multiple samples (but the same worflow ran successfully over 2 samples): Failed t...
-
Mutect2 Funcotator error
Hi, I am trying to run Mutect2 (github.com/broadinstitute/gatk/mutect2:4.1.6.0) workflow in Terra, but it seems to be failing at Funcotator because annotated.maf.idx file is not being created? I...
-
Mutect2 PON - gnomAD input?
Can you please provide a) GATK version used b) Exact GATK commands used c) The entire error log if applicable. I am trying to run Mutect2 PON workflow (https://portal.firecloud.org/?return=terra#me...