nickhsmith 454e0acc09 Mpileup intervals (#1955) ... * update tests * update * update * make the manta inputs consistant for germline/somatic/tumoronly * match chromosomes to cram file (chr21) * undo genotypegvfs * undo genotypegvfs * include intervals * update md5 with interval Co-authored-by: Smith Nicholas <smith@in.tum.de>		2022-08-16 14:16:35 +02:00
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ampliconclip	Samtools version update (#1507)	2022-04-11 14:26:28 +02:00
bam2fq	Remove variable md5sum from the tests	2022-05-05 08:32:45 +02:00
collatefastq	Add samtools/collatefastq module (#1536)	2022-04-20 10:05:17 +02:00
convert	Generalize Bam2Cram do either conversion	2022-05-09 15:22:54 +02:00
depth	Update all modules to new NF DSL2 syntax (#1099)	2021-11-26 07:58:40 +00:00
dict	Added the samtools/dict module (#1922)	2022-07-26 22:13:19 +01:00
faidx	Samtools version update (#1507)	2022-04-11 14:26:28 +02:00
fastq	update samtools version to 1.15 (#1358)	2022-02-28 12:42:29 +01:00
fixmate	Samtools version update (#1507)	2022-04-11 14:26:28 +02:00
flagstat	samtools/*stats*: use prefix for outputs (#1788)	2022-06-16 13:42:01 +02:00
idxstats	samtools/*stats*: use prefix for outputs (#1788)	2022-06-16 13:42:01 +02:00
index	update samtools version to 1.15 (#1358)	2022-02-28 12:42:29 +01:00
merge	small update to samtools/merge (#1896)	2022-07-18 11:37:45 +02:00
mpileup	Mpileup intervals (#1955)	2022-08-16 14:16:35 +02:00
sort	Samtools version update (#1507)	2022-04-11 14:26:28 +02:00
stats	samtools/*stats*: use prefix for outputs (#1788)	2022-06-16 13:42:01 +02:00
view	fix datatest for stubs	2022-05-06 15:34:18 +02:00