4 commits

Author	SHA1	Message	Date
Maxime U. Garcia	3426834744	feat: fastaidx -> fai (#1073)	2021-11-15 18:03:02 +01:00
Maxime U. Garcia	5b1ce484b9	feat: _idx -> _tbi (#1074) ... Co-authored-by: FriederikeHanssen <Friederike.hanssen@qbic.uni-tuebingen.de>	2021-11-15 17:49:20 +01:00
GCJMackenzie	71945a5b5f	Mutect2 add mitochondria mode and update tests (#967) ... * new mitochondria mode added, tests updated to allow for temp fix for test data * add cram test * bam/bam_idx renamed to input and input_index Co-authored-by: GCJMackenzie <gavin.mackenzie@nibsc.org>	2021-10-29 11:27:56 +01:00
GCJMackenzie	bd68797ffb	Mutect2 (#682) ... * mutect2 files added, first draft of module code entered * removing comment from main.nf * removing comment from main.nf * test added, commit made before editing yaml * tests added, still needs final check and info/comments added * gatk4 version changed to gatk4=4.2.0.0 * multiple sample support added, information added to module yaml file * Update meta.yml fixed linting error * add keywords to meta.yml * Corrections made to meta.yml * removed whitespace from meta.yml Co-authored-by: Gavin.Mackenzie <gavin.mackenzie@nibsc.org> Co-authored-by: Maxime U. Garcia <max.u.garcia@gmail.com>	2021-09-13 16:16:23 +01:00