Issues

• Problem running Dockerized protect / where to find SSE-C key for downloading reference data?

  BD2KGenomics/protect#294 · Filter by author anttikos opened on Jun 17, 2021
  4

• Error when using Dockerized PHLAT

  BD2KGenomics/protect#293 · Filter by author rbowenj opened on May 18, 2021

• numerically sort positions in vcfs

  BD2KGenomics/protect#290 · Filter by author arkal opened on May 26, 2018
  2

• Allow user to specify majority

  BD2KGenomics/protect#286 · Filter by author arkal opened on May 16, 2018
  

• Make saving logs (if possible) a univ_option

  BD2KGenomics/protect#275 · Filter by author arkal opened on May 1, 2018

• Allow choice of pMHC predictors

  BD2KGenomics/protect#269 · Filter by author davidstew opened on Apr 18, 2018

• Allow mix and match of mutation callers

  in progress
  BD2KGenomics/protect#265 · Filter by author arkal opened on Mar 19, 2018
  

• Make section in manual on contributions

  BD2KGenomics/protect#264 · Filter by author arkal opened on Mar 2, 2018
  

• Ensure resource requirements are provided for EACH job

  BD2KGenomics/protect#255 · Filter by author arkal opened on Jan 31, 2018

• Better help with Protect --help

  BD2KGenomics/protect#253 · Filter by author arkal opened on Jan 31, 2018

• Consider MHCFlurry

  BD2KGenomics/protect#249 · Filter by author arkal opened on Jan 26, 2018

• Citable reference

  BD2KGenomics/protect#248 · Filter by author schelhorn opened on Jan 21, 2018
  2

• Consider DeepMHC

  BD2KGenomics/protect#247 · Filter by author arkal opened on Jan 8, 2018

• Diagnose "Removal In Progress

  BD2KGenomics/protect#245 · Filter by author arkal opened on Jan 7, 2018

• left align indels

  BD2KGenomics/protect#239 · Filter by author arkal opened on Nov 7, 2017
  1

• Upgrade to mhci:2.17

  BD2KGenomics/protect#238 · Filter by author arkal opened on Oct 26, 2017

• Disregard mitochondrial and rna-gene fusions

  in progress
  BD2KGenomics/protect#237 · Filter by author arkal opened on Oct 16, 2017
  

• Fix Makefiles to not crash on release jenkins runs

  BD2KGenomics/protect#222 · Filter by author arkal opened on Jul 12, 2017

• Add note to README about non-deterministic filter-radia failures

  BD2KGenomics/protect#217 · Filter by author arkal opened on Jun 26, 2017

• Don't fail if transgene finds 0 actionable mutations

  in progress
  BD2KGenomics/protect#214 · Filter by author arkal opened on Jun 24, 2017
  

• Modify dockerfile to safe-remove toil.git always

  BD2KGenomics/protect#206 · Filter by author arkal opened on Jun 15, 2017

• Add fusions to start-from-vcf support

  BD2KGenomics/protect#192 · Filter by author arkal opened on Jun 1, 2017

• encrypt aws jobstore

  BD2KGenomics/protect#151 · Filter by author arkal opened on Feb 8, 2017

• Docker output is a single tar file - should be one tar per subdirectory

  BD2KGenomics/protect#150 · Filter by author cket opened on Feb 8, 2017
  

• Add Prada guess-ft

  BD2KGenomics/protect#94 · Filter by author jpfeil opened on Aug 3, 2016