Commits · bd7dec8fd69f8004f55f30e6e6a20a970189ac0e · Xavier Grand / ChIPster · GitLab

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Feb 18, 2021
- macs3: test new syntax for options · bd7dec8f
  Laurent Modolo authored 4 years ago
  
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  bd7dec8f
- macs3: fix call cmd · c4218fde
  Laurent Modolo authored 4 years ago
  
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  c4218fde
- docker: add ps to macs3 · 79984ea1
  Laurent Modolo authored 4 years ago
  
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  79984ea1
- macs3: add default gsize · 62e7c32c
  Laurent Modolo authored 4 years ago
  
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  62e7c32c
- macs3: fix file names · 8d12bcf2
  Laurent Modolo authored 4 years ago
  
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  8d12bcf2
- macs3: fix awk cmd · eab763e8
  Laurent Modolo authored 4 years ago
  
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  eab763e8
- macs3: add main.nf · 0d885dcd
  Laurent Modolo authored 4 years ago
  
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  0d885dcd
- docker: add macs3 · 88b0ccc4
  Laurent Modolo authored 4 years ago
  
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  88b0ccc4
Feb 17, 2021
- nextflow.config: fix errorStrategy · 8fe24a84
  Laurent Modolo authored 4 years ago
  
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  8fe24a84
- nextflow.config: simplify errorStrategy for computing grid · eed28334
  Laurent Modolo authored 4 years ago
  
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  eed28334
- nextflow.config: change errorStrategy · 04fa21c5
  Laurent Modolo authored 4 years ago
  
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  04fa21c5
- gatk3: add new processes · 1207cdab
  Laurent Modolo authored 4 years ago
  
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  1207cdab
- gatk3: fix variant calling · eddc374c
  Laurent Modolo authored 4 years ago
  
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  eddc374c
- 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
- fix bwa indexing · 21f39466
  Laurent Modolo authored 4 years ago
  
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  21f39466
- typo in gatk3 to DSL2 · 23755281
  Laurent Modolo authored 4 years ago
  
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  23755281
- 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
- fix fix g2gtools 0.2.8 · 0f8b9d13
  Laurent Modolo authored 4 years ago
  
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  0f8b9d13
Feb 10, 2021
- nf_modules: add ucsc bg to bw fix output · 59f8cb0a
  Laurent Modolo authored 4 years ago
  
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  59f8cb0a
- nf_modules: add ucsc bg to bw sorting step · b16d01fc
  Laurent Modolo authored 4 years ago
  
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  b16d01fc
- nf_modules: add ucsc bg to bw · b0f22ec2
  Laurent Modolo authored 4 years ago
  
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  b0f22ec2
Feb 04, 2021
- docker: add deeptools 3.5.0 · 3b208403
  Laurent Modolo authored 4 years ago
  
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  3b208403
- solution_RNASeq.nf: update command to launch pipe · 015419e5
  Laurent Modolo authored 4 years ago
  
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  015419e5
- nextfow.config: update base default version · cfd71a7d
  Laurent Modolo authored 4 years ago
  
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  cfd71a7d
- docker: add ucsc:407 · 81ab1116
  Laurent Modolo authored 4 years ago
  
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  81ab1116
- nf_modules: add bam to bedgraph and change deeptools version · ef37d983
  Laurent Modolo authored 4 years ago
  
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  ef37d983
Feb 03, 2021
- nf_module: remove publishDir instruction · ed7fec13
  Laurent Modolo authored 4 years ago
  
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  ed7fec13
- fastqc: main.nf cleanup code · 0a08b991
  Laurent Modolo authored 4 years ago
  
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  0a08b991
- 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
- nf_modules: update output tuple to handle list as file_id · 28a831bf
  Laurent Modolo authored 4 years ago
  
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  28a831bf
- 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 27, 2021
- nextflow.config: add memory limits · ebecfb6d
  Laurent Modolo authored 4 years ago
  
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  ebecfb6d
- picard: fix uper memory limit to 30GB · 41f34c15
  Laurent Modolo authored 4 years ago
  
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  41f34c15