nextflow run BarryDigby/DNAseq_references
Optional arguments:
--version STRING GRCh37 or GRCh38 (default)
--outDir STRING output directory path; NB ${params.version} dir is created therein
--exometag STRING naming for exome outputs when supplied; tag is then used in somatic_n-of-1 and batch_somatic pipelines to select relevant exome data
and either
--exomebedurl STRING URL to exome bed file for intervals; NB assumes GRCh37
or
--exomebedfile STRING locally downloaded exome bed file for intervals; NB assumes GRCh37