Crm/brca#13
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niamhat wants to merge 7 commits into
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not needed in new pipeline
removing commented out sections
removing commented out sections that aren't needed
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inputs are different - no longer need transcript strictness, bed file, known variants and config file.
vcf_report - removed unnecessary columns from the vcf and loops through all vep annotations as no config file provided.
vcf_parse - edited from https://github.com/AWGL/somatic_enrichment_nextflow/blob/development/scripts/vcf2db.py