FriederikeHanssen f5d5926516 Update intervals (#1278) ... * Match target bed to input files * Intervals in getpileupsumamries * more interval updates * change targets in strelka * remove leftover channel * fix checksums * add new test vcfs * add new test vcfs * Update modules/freebayes/main.nf Co-authored-by: Maxime U. Garcia <maxime.garcia@scilifelab.se>		2022-02-10 10:34:22 +01:00
..
applybqsr	Log4j again (#1202)	2022-01-12 13:55:54 +01:00
applyvqsr	Log4j again (#1202)	2022-01-12 13:55:54 +01:00
baserecalibrator	Change intervals to be part of sample specific input (#1189)	2021-12-23 12:58:20 +01:00
bedtointervallist	Update all modules to new NF DSL2 syntax (#1099)	2021-11-26 07:58:40 +00:00
calculatecontamination	Log4j again (#1202)	2022-01-12 13:55:54 +01:00
createsequencedictionary	Update all modules to new NF DSL2 syntax (#1099)	2021-11-26 07:58:40 +00:00
createsomaticpanelofnormals	Change syntax from task.ext.suffix to tast.ext.prefix in all modules (#1110)	2021-12-02 12:39:55 +00:00
estimatelibrarycomplexity	Update all modules to new NF DSL2 syntax (#1099)	2021-11-26 07:58:40 +00:00
fastqtosam	Log4j again (#1202)	2022-01-12 13:55:54 +01:00
filtermutectcalls	Update version for log4j vulnerability (#1176)	2021-12-20 17:10:49 +01:00
gatherbqsrreports	Log4j again (#1202)	2022-01-12 13:55:54 +01:00
genomicsdbimport	Log4j again (#1202)	2022-01-12 13:55:54 +01:00
genotypegvcfs	Change intervals to be part of sample specific input (#1189)	2021-12-23 12:58:20 +01:00
getpileupsummaries	Update intervals (#1278)	2022-02-10 10:34:22 +01:00
haplotypecaller	Change intervals to be part of sample specific input (#1189)	2021-12-23 12:58:20 +01:00
indexfeaturefile	Log4j again (#1202)	2022-01-12 13:55:54 +01:00
intervallisttools	Update all modules to new NF DSL2 syntax (#1099)	2021-11-26 07:58:40 +00:00
learnreadorientationmodel	Change syntax from task.ext.suffix to tast.ext.prefix in all modules (#1110)	2021-12-02 12:39:55 +00:00
markduplicates	Log4j again (#1202)	2022-01-12 13:55:54 +01:00
mergebamalignment	Update mergebam syntax and sample specific unmapped channel (#1238)	2022-01-27 15:30:27 +00:00
mergevcfs	Update all modules to new NF DSL2 syntax (#1099)	2021-11-26 07:58:40 +00:00
mutect2	Update intervals (#1278)	2022-02-10 10:34:22 +01:00
revertsam	Update all modules to new NF DSL2 syntax (#1099)	2021-11-26 07:58:40 +00:00
samtofastq	Update all modules to new NF DSL2 syntax (#1099)	2021-11-26 07:58:40 +00:00
splitncigarreads	Log4j again (#1202)	2022-01-12 13:55:54 +01:00
variantfiltration	Change syntax from task.ext.suffix to tast.ext.prefix in all modules (#1110)	2021-12-02 12:39:55 +00:00
variantrecalibrator	add module: Variantrecalibrator (#1088)	2021-12-16 10:54:49 +00:00