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uclahs-cds / metapipeline-DNA

Nextflow pipeline to convert BAM to FASTQ, align, perform QC, assess targeted coverage, call gSNP, call sSNV, call mtSNV, call SVs, call sCNA, and perform subclonal reconstruction
GNU General Public License v2.0
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Update intermediate file structure and naming #57

Open yashpatel6 opened 2 years ago

yashpatel6 commented 2 years ago

Rename intermediate CSVs and update the output directory naming/structure to be more precise/standardized

yashpatel6 commented 2 years ago 
    Would it be feasible to standardize this header as well? (i.e. patient_id, etc)

_Originally posted by @tyamaguchi-ucla in https://github.com/uclahs-cds/metapipeline-DNA/pull/62#discussion_r980734855_

Standardize the column names in intermediate files as well