Commits · a7358e47a5159827491b3baee44592056bb896d9 · LBMC / nextflow · GitLab

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Nov 02, 2021
- samtools: rename flagstat log for multiqc · a7358e47
  Laurent Modolo authored 3 years ago
  
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  a7358e47
Oct 07, 2021
- samtools: fix process name :79 · 8f94a832
  Laurent Modolo authored 3 years ago
  
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  8f94a832
- samtools: add rm_from_bam process · e4d6d7ab
  Laurent Modolo authored 3 years ago
  
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  e4d6d7ab
Oct 06, 2021
- samtools: fix bug :21 · 7286daef
  Laurent Modolo authored 3 years ago
  
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  7286daef
- samtools: add gzip for samtools faidx · d5cacb23
  Laurent Modolo authored 3 years ago
  
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  d5cacb23
Apr 27, 2021
- nf_modules: minors fix in deeptools and samtools · c52ab0e7
  Laurent Modolo authored 3 years ago
  
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  c52ab0e7
Apr 26, 2021
- samtools: fix split_bam @ option · 1f25c4c5
  Laurent Modolo authored 3 years ago
  
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  1f25c4c5
Apr 15, 2021
- samtools: update publishDir directives · c6944a8e
  Laurent Modolo authored 3 years ago
  
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  c6944a8e
- nf_modules: fix bug in variable names for samtools and bwa · c75f1dda
  Laurent Modolo authored 3 years ago
  
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  c75f1dda
- nf_modules: update last main.nf to change in CONTRIBUTING.md · fdb5acb8
  Laurent Modolo authored 3 years ago
  
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  fdb5acb8
Apr 14, 2021
- samtools: update to follow CONTRIBUTING.md · 84daa858
  Laurent Modolo authored 3 years ago
  
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  84daa858
Mar 16, 2021
- samtools: fix input for multiqc process · 15bb2a0a
  Laurent Modolo authored 4 years ago
  
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  15bb2a0a
- samtools: fix output for multiqc process · ce6cb60b
  Laurent Modolo authored 4 years ago
  
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  ce6cb60b
- samtools: add process to rename files for multiqc · 309f80d7
  Laurent Modolo authored 4 years ago
  
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  309f80d7
Feb 22, 2021
- picard: improve picard index output · 2fde78ba
  Laurent Modolo authored 4 years ago
  
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  2fde78ba
- samtools: fix merge_multi_bam · 493aaa15
  Laurent Modolo authored 4 years ago
  
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  493aaa15
- samtools: fix merge_multi_bam · aa838665
  Laurent Modolo authored 4 years ago
  
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  aa838665
Feb 17, 2021
- samtools: modify output name of merge_multi_bam · cd23e1e3
  Laurent Modolo authored 4 years ago
  
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  cd23e1e3
- samtools: add process to merge multiple bam · ff5c7a24
  Laurent Modolo authored 4 years ago
  
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  ff5c7a24
Feb 15, 2021
- add gatk3 to DSL2 · 4a115a8a
  Laurent Modolo authored 4 years ago
  
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  4a115a8a
- update picard samtools and bwa for DSL2 · 7a17de40
  Laurent Modolo authored 4 years ago
  
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  7a17de40
Feb 03, 2021
- samtools: main.nf clarify bam_index output1 · b9d4fdda
  Laurent Modolo authored 4 years ago
  
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  b9d4fdda
- samtools: test for indexing · ed50e0a0
  Laurent Modolo authored 4 years ago
  
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  ed50e0a0
Jan 29, 2021
- samtools: change file_id to bam.simpleName · 0dff7e33
  Laurent Modolo authored 4 years ago
  
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  0dff7e33
- docker: add samtools v1.11 · 962ac77e
  Laurent Modolo authored 4 years ago
  
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  962ac77e
- samtools: fix flagstats cmd · ebb5cb65
  Laurent Modolo authored 4 years ago
  
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  ebb5cb65
- samtools: change label for bam_stats · 42f56bde
  Laurent Modolo authored 4 years ago
  
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  42f56bde
- samtools: add bam_stats process · a4d4bdb9
  Laurent Modolo authored 4 years ago
  
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  a4d4bdb9
Jan 25, 2021
- samtools: fix filter_bam_mapped · e3a42082
  Laurent Modolo authored 4 years ago
  
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  e3a42082
- samtools: fix catched bams names · 9f34d846
  Laurent Modolo authored 4 years ago
  
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  9f34d846
- samtools: fix samtools version · a8e8560a
  Laurent Modolo authored 4 years ago
  
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  a8e8560a
- fix input and output for bedtools and samtools · 8bebb4a1
  Laurent Modolo authored 4 years ago
  
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  8bebb4a1
- samtools: nf_module add mapped and unmapped filter · de331fa7
  Laurent Modolo authored 4 years ago
  
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  de331fa7
Jan 22, 2021
- nf_modules: add samtools DSL2 · 3de89ded
  Laurent Modolo authored 4 years ago
  
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  3de89ded