gatk

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Hi, I'm trying to validate the performance of BwaSpark (I'm running it locally). The input ubam file size is 5.1 GB. It takes 65 minutes for GATK's BwaSpark to complete...

joshua-biocoder

dror27

TODO: Builder method Still want to fully test the compressed location method (do we? do we care about this for Azure?!??!) Still want to fully test the header creation to...

RoriCremer

Code Review for #8752

4

This is responding to code review on #8752

bbimber

chrisvittal

[DRAFT] Merge master to ah var store again [VS-1178]

1

mcovarr

A forum topic asked whether we can have a behavior to keep original contig names in FastaAlternateReferenceMaker tool. A new parameter `--keep-contig-names` is added. New optional behavior is to set...

gokalpcelik

DetermineGermlineContigPloidy module using gcnvkernel

1

Hello, I am trying to set up a python environment to use gatk DetermineGermlineContigPloidy module. I cannot use conda. I have tried to install in a virtual python environment the...

hgingras

Extract the revision 1 / "full" filter tables only [VS-1409]

3

What appears to be a successful run [here](https://app.terra.bio/#workspaces/allofus-drc-wgs-dev/GVS%20AoU%20WGS%20Echo%20Callset%20v2/job_history/0e501a3f-3cb1-4bd0-b418-0c4160f0caa2) (requires PMI ops auth).

mcovarr

Docker container should allow use by non-privileged user

2

## Bug Report ### Affected tool(s) or class(es) N/A ### Affected version(s) - [ x] Latest public release version [4.5.0.0] - [ ] Latest master branch as of [date of...

potter-s