Refactor variant calling processes to use separate normalize_vcf steps

NYU-Molecular-Pathology / NGS580-nf

Target exome sequencing analysis for NYU NGS580 gene panel

GNU General Public License v3.0

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Refactor variant calling processes to use separate normalize_vcf steps #32

Open stevekm opened 4 years ago

stevekm commented 4 years ago

Right now most variant calling processes in the pipeline immediately normalize vcf files internally with bcftools using their own dedicated methods. Need to decouple these into the separate normalize_vcfs_pairs and normalize_vcfs tasks.