millironx/nf-core_modules
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nf-core_modules/modules/gatk4
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praveenraj2018 43a1c1c6d1
Update in GATK4 variantfiltration: Added vcf_index to vcf tuple; output to vcf.gz format. (#1083) 
* Added vcf_index to vcf tuple; output to vcf.gz format.

* Fix: extra new line in meta.yml.

* addressed review feedback

* fix: editorconfig error

* fix: gatk memory flag

* fix: editorconfig error

* fix: Indentation 

fix: Indentation

* Fix: lint editorconfig error

Removed one extra space

Co-authored-by: Robert A. Petit III <robbie.petit@gmail.com>
2021-11-18 21:47:40 +01:00
..
applybqsr feat: fastaidx -> fai (#1073) 2021-11-15 18:03:02 +01:00
baserecalibrator feat: fastaidx -> fai (#1073) 2021-11-15 18:03:02 +01:00
bedtointervallist feat: update gatk4 from 4.2.0.0 to 4.2.3.0 (#1059) 2021-11-11 08:58:59 +01:00
calculatecontamination feat: update gatk4 from 4.2.0.0 to 4.2.3.0 (#1059) 2021-11-11 08:58:59 +01:00
createsequencedictionary feat: update gatk4 from 4.2.0.0 to 4.2.3.0 (#1059) 2021-11-11 08:58:59 +01:00
createsomaticpanelofnormals feat: fastaidx -> fai (#1073) 2021-11-15 18:03:02 +01:00
estimatelibrarycomplexity feat: update gatk4 from 4.2.0.0 to 4.2.3.0 (#1059) 2021-11-11 08:58:59 +01:00
fastqtosam feat: update gatk4 from 4.2.0.0 to 4.2.3.0 (#1059) 2021-11-11 08:58:59 +01:00
filtermutectcalls feat: fastaidx -> fai (#1073) 2021-11-15 18:03:02 +01:00
genomicsdbimport feat: update gatk4 from 4.2.0.0 to 4.2.3.0 (#1059) 2021-11-11 08:58:59 +01:00
genotypegvcfs New modules added: issues #200 and #310 (#884) 2021-11-15 15:43:06 +00:00
getpileupsummaries feat: _idx -> _tbi (#1074) 2021-11-15 17:49:20 +01:00
haplotypecaller feat: update gatk4 from 4.2.0.0 to 4.2.3.0 (#1059) 2021-11-11 08:58:59 +01:00
indexfeaturefile New modules added: issues #200 and #310 (#884) 2021-11-15 15:43:06 +00:00
intervallisttools feat: update gatk4 from 4.2.0.0 to 4.2.3.0 (#1059) 2021-11-11 08:58:59 +01:00
learnreadorientationmodel feat: update gatk4 from 4.2.0.0 to 4.2.3.0 (#1059) 2021-11-11 08:58:59 +01:00
markduplicates feat: update gatk4 from 4.2.0.0 to 4.2.3.0 (#1059) 2021-11-11 08:58:59 +01:00
mergebamalignment feat: update gatk4 from 4.2.0.0 to 4.2.3.0 (#1059) 2021-11-11 08:58:59 +01:00
mergevcfs feat: update gatk4 from 4.2.0.0 to 4.2.3.0 (#1059) 2021-11-11 08:58:59 +01:00
mutect2 feat: fastaidx -> fai (#1073) 2021-11-15 18:03:02 +01:00
revertsam feat: update gatk4 from 4.2.0.0 to 4.2.3.0 (#1059) 2021-11-11 08:58:59 +01:00
samtofastq feat: update gatk4 from 4.2.0.0 to 4.2.3.0 (#1059) 2021-11-11 08:58:59 +01:00
splitncigarreads GATK4 SplitNCigarReads: fasta_fai_dict tuple is now split into separate input channels (#1076) 2021-11-16 15:09:30 +01:00
variantfiltration Update in GATK4 variantfiltration: Added vcf_index to vcf tuple; output to vcf.gz format. (#1083) 2021-11-18 21:47:40 +01:00