GCJMackenzie 9f8d9fb615 Add applyvqsr (#1101) ... * initial commit to setup branch * workflow finished * Update nextflow.config * tumour to tumor, getpileup passed as nomral and tumor * paired_somatic renamed to tumor_normal_somatic * Apply suggestions from code review Co-authored-by: Maxime U. Garcia <maxime.garcia@scilifelab.se> * Update subworkflows/nf-core/gatk_tumor_normal_somatic_variant_calling/main.nf Co-authored-by: Maxime U. Garcia <maxime.garcia@scilifelab.se> * updated index names in meta.yml * changed index file names in main script and test * Apply suggestions from code review Co-authored-by: Maxime U. Garcia <maxime.garcia@scilifelab.se> * Apply suggestions from code review * fixed bug from changes * Apply suggestions from code review * modified yml to allow new subworkflow testing * Update test.yml * Update test.yml * add applyvqsr * added memory options, new test data used * Update main.nf * Update main.nf Co-authored-by: GCJMackenzie <gavin.mackenzie@nibsc.org> Co-authored-by: Maxime U. Garcia <maxime.garcia@scilifelab.se>		2021-12-16 08:44:50 +00:00
..
config	Add applyvqsr (#1101)	2021-12-16 08:44:50 +00:00
modules	Add applyvqsr (#1101)	2021-12-16 08:44:50 +00:00
subworkflows/nf-core	Added UMI sub-workflow (#1098)	2021-12-09 11:16:40 +01:00
test_versions_yml.py	Subworkflow Infrastructure (#662)	2021-10-08 16:02:42 +01:00