Commits · 59f8cb0a69f0af55786aa758601b5dbdd651a772 · Xavier Grand / ChIPster · GitLab

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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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- 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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- 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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- 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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- samtools: add bam_stats process · a4d4bdb9
  Laurent Modolo authored 4 years ago
  
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Jan 27, 2021
- nextflow.config: add memory limits · ebecfb6d
  Laurent Modolo authored 4 years ago
  
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- picard: fix uper memory limit to 30GB · 41f34c15
  Laurent Modolo authored 4 years ago
  
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- picard: fix bams var in main.nf · 988c4020
  Laurent Modolo authored 4 years ago
  
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  988c4020
Jan 25, 2021
- bedtools: add bam_id val · 9cc39469
  Laurent Modolo authored 4 years ago
  
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  9cc39469
- samtools: fix filter_bam_mapped · e3a42082
  Laurent Modolo authored 4 years ago
  
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  e3a42082
- bedtools: bam_to_fastq emits tuple · 30d17edc
  Laurent Modolo authored 4 years ago
  
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  30d17edc
- bedtools: fix bam_to_fastq script · 8338d66f
  Laurent Modolo authored 4 years ago
  
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  8338d66f
- bedtools: fix tags · 5d11f90e
  Laurent Modolo authored 4 years ago
  
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- 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
- bedtools: fix output value name for bam_to_fastq_pairedend · 2e62b247
  Laurent Modolo authored 4 years ago
  
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  2e62b247
- bedtools: change bam_to_fastq_pairedend name to be more consistant · 41651a7a
  Laurent Modolo authored 4 years ago
  
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  41651a7a
- fix input and output for bedtools and samtools · 8bebb4a1
  Laurent Modolo authored 4 years ago
  
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- bedtools: add bam to fastq convertion · 70c7d906
  Laurent Modolo authored 4 years ago
  
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  70c7d906
- samtools: nf_module add mapped and unmapped filter · de331fa7
  Laurent Modolo authored 4 years ago
  
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  de331fa7
- sratoolkit: rename main module · ce4c569e
  Laurent Modolo authored 4 years ago
  
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- nf_module: sratoolkit add DSL2 · 5bc80c3d
  Laurent Modolo authored 4 years ago
  
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Jan 22, 2021
- nf_modules: add deeptools to DSL2 · 7b298e92
  Laurent Modolo authored 4 years ago
  
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  7b298e92
- nf_modules: add sambamba to DSL2 · 94c41f30
  Laurent Modolo authored 4 years ago
  
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  94c41f30
- nf_modules: add samtools DSL2 · 3de89ded
  Laurent Modolo authored 4 years ago
  
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  3de89ded
- nf_modules: add picard · a3d3e95b
  Laurent Modolo authored 4 years ago
  
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  a3d3e95b
- nf_modules: multiqc add DSL2 · fe874785
  Laurent Modolo authored 4 years ago
  
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  fe874785