included in the files Makefile and update_count_cols_for_portal.py
Need to back-port these methods into the current samples_fillout_workflow.cwl.
Advantages of the new methodology;
included columns in output .maf file for labeling the original samples for each mutation, whether each mutation originated from a sample or from fillout
better handling of allele depths in output maf
comment lines in output maf to explain the new columns
updates to make the output maf work better in cBio Portal
stevekm
commented
3 years ago
New methods have been developed to handle samples fillout workflow.
The new workflow was used in these projects
/juno/work/ci/00.ULTRA/MSK-MelPCM/juno/work/ci/kellys5/projects/analysis/2021-05-21_ParadaLabincluded in the files
Makefileandupdate_count_cols_for_portal.pyNeed to back-port these methods into the current
samples_fillout_workflow.cwl.Advantages of the new methodology;