Commits · b18b1efef2acd9a59ec71b3952c77da6e661e7be · Xavier Grand / ChIPster

Mar 09, 2021
- gatk4: remove spark... · b18b1efe
  Laurent Modolo authored 4 years ago
  
  b18b1efe
- gatk4: fix java-options · 8e3c7bf4
  Laurent Modolo authored 4 years ago
  
  8e3c7bf4
- gatk4: change -o to -O · 342d3265
  Laurent Modolo authored 4 years ago
  
  342d3265
- gatk4: fix spark config · b2d82f21
  Laurent Modolo authored 4 years ago
  
  b2d82f21
- gatk4: change -nct to --spark-master option · c0aef2ef
  Laurent Modolo authored 4 years ago
  
  c0aef2ef
Mar 08, 2021
- gatk4: remove unnecessary -T option · 021ace34
  Laurent Modolo authored 4 years ago
  
  021ace34
- gatk4: try to fix task memory parsing · 2d1951f6
  Laurent Modolo authored 4 years ago
  
  2d1951f6
- gatk4: add G unit to xmx params · 986ed55b
  Laurent Modolo authored 4 years ago
  
  986ed55b
- gatk4: add xmx_memory parsing for every process · ca0ecd54
  Laurent Modolo authored 4 years ago
  
  ca0ecd54
- docker: add r 4.0.3 · ead3fe96
  Laurent Modolo authored 4 years ago
  
  ead3fe96
- gatk4: fix typo :264 · 61d6bb79
  Laurent Modolo authored 4 years ago
  
  61d6bb79
- gatk4: change Xmx option parsing · 8818f78d
  Laurent Modolo authored 4 years ago
  
  8818f78d
Mar 05, 2021
- nf_modules: add gatk4 · bea9b094
  Laurent Modolo authored 4 years ago
  
  bea9b094
- nextflow.config: remove space in memory declaration · 799be6b8
  Laurent Modolo authored 4 years ago
  
  799be6b8
Mar 02, 2021
- macs2: caputre *_peaks.xls for multiqc report · 19ff2662
  Laurent Modolo authored 4 years ago
  
  19ff2662
Feb 25, 2021
- bwa: add quote surrounding -R option · 97953ba2
  Laurent Modolo authored 4 years ago
  
  97953ba2
- bwa: fix bwa_mem_R call · ade97af3
  Laurent Modolo authored 4 years ago
  
  ade97af3
- bwa: add params.bwa_mem_R variable · 449693e2
  Laurent Modolo authored 4 years ago
  
  449693e2
Feb 24, 2021
- picard: fix output name of index_fasta · 40ebfabd
  Laurent Modolo authored 4 years ago
  
  40ebfabd
Feb 22, 2021
- picard: main.nf: improve output index_fasta output · 083a9441
  Laurent Modolo authored 4 years ago
  
  083a9441
- picard: improve picard index output · 2fde78ba
  Laurent Modolo authored 4 years ago
  
  2fde78ba
- samtools: fix merge_multi_bam · 493aaa15
  Laurent Modolo authored 4 years ago
  
  493aaa15
- samtools: fix merge_multi_bam · aa838665
  Laurent Modolo authored 4 years ago
  
  aa838665
- macs2: add file_id to output · 9a88f356
  Laurent Modolo authored 4 years ago
  
  9a88f356
- bwa: fix report name · b725862d
  Laurent Modolo authored 4 years ago
  
  b725862d
Feb 20, 2021
- macs2: emit tuple with file_id · e7ba77d3
  Laurent Modolo authored 4 years ago
  
  e7ba77d3
- macs2: emit tuple with file_id · 6ebfb041
  Laurent Modolo authored 4 years ago
  
  6ebfb041
- bwa: fix typo :42 · e7bfb733
  Laurent Modolo authored 4 years ago
  
  e7bfb733
- bwa: fix typo :42 · c99e5a39
  Laurent Modolo authored 4 years ago
  
  c99e5a39
- macs2: fix narrowpeak capture · bd7b89f4
  Laurent Modolo authored 4 years ago
  
  bd7b89f4
- docker: bwa replace sambamba with samtools · ec1d8657
  Laurent Modolo authored 4 years ago
  
  ec1d8657
- bwa: replace sambamba by sambools · 0e7adae3
  Laurent Modolo authored 4 years ago
  
  0e7adae3
- macs2: cleanup output · c6189ba3
  Laurent Modolo authored 4 years ago
  
  c6189ba3
- nextflow.config:improove pmsn 32 cpus queue · 175a472e
  Laurent Modolo authored 4 years ago
  
  175a472e
- docker: bwa fix sambamba rights · 618c6ac7
  Laurent Modolo authored 4 years ago
  
  618c6ac7
Feb 18, 2021
- bwa: fix typo :42 · b0cf08d6
  Laurent Modolo authored 4 years ago
  
  b0cf08d6
- fastp: fix output name to be catched by multiqc · b5a93ee3
  Laurent Modolo authored 4 years ago
  
  b5a93ee3
- fastp: fix output to capture json files · ad8474e6
  Laurent Modolo authored 4 years ago
  
  ad8474e6
- nextflow.config: fix psmn monocpu cmd · 4b33241e
  Laurent Modolo authored 4 years ago
  
  4b33241e
- nextflow.config: add 192 monointerl queue for psmn · e7d4fec1
  Laurent Modolo authored 4 years ago
  
  e7d4fec1