Commits · 2d8f8287f57add4e9e94d16ff8c5041beadabece · LBMC / nextflow

"README.md" did not exist on "e7d8a2da499e362144a0145b9627698462099b65"

Sep 24, 2018
- 1_JU28_59vs17_SNP_calling.sh: add cmd for Mutect2 · 2d8f8287
  Laurent Modolo authored 6 years ago
  
  2d8f8287
- SNP_calling.config: add docker configs · dcde6659
  Laurent Modolo authored 6 years ago
  
  dcde6659
- src/SNP_calling.nf: add Mutect2 to call SNP · 224bbd69
  Laurent Modolo authored 6 years ago
  
  224bbd69
Sep 18, 2018
- SNP_calling.nf: QC and mapping · a2f71be3
  Laurent Modolo authored 6 years ago
  
  a2f71be3
- SNP_calling.config: create pipeline conf file · 0d2b6e6c
  Laurent Modolo authored 6 years ago
  
  0d2b6e6c
- 1_JU28_59vs17_SNP_calling.sh: add sh to launch pipeline · 7efa0b93
  Laurent Modolo authored 6 years ago
  
  7efa0b93
Sep 17, 2018
- GATK: add docker files · 700c50ef
  Laurent Modolo authored 6 years ago
  
  700c50ef
- sambamba: add nf files · bc91a90e
  Laurent Modolo authored 6 years ago
  
  bc91a90e
- sambamba: add Docker files · 6a540919
  Laurent Modolo authored 6 years ago
  
  6a540919
- samblaster: add nf files · 05dfb3b0
  Laurent Modolo authored 6 years ago
  
  05dfb3b0
- samblaster: add dockerfiles · ec475c5f
  Laurent Modolo authored 6 years ago
  
  ec475c5f
- BWA: add nf file for paired mapping · f40aa5d9
  Laurent Modolo authored 6 years ago
  
  f40aa5d9
Sep 14, 2018
- BWA: add docker files · a2c5d6c2
  Laurent Modolo authored 6 years ago
  
  a2c5d6c2
Sep 13, 2018
- Kallisto.nf: update report format · aac64942
  Laurent Modolo authored 6 years ago
  
  aac64942
Aug 31, 2018
- nf_modules: fix tests.sh to use local nextflow bin · 5386a286
  Laurent Modolo authored 6 years ago
  
  5386a286
- Kallisto: fix tests.sh · c43032e6
  Laurent Modolo authored 6 years ago
  
  c43032e6
Aug 29, 2018
- MUSIC: change read size param · 3bbe96f6
  Laurent Modolo authored 6 years ago
  
  3bbe96f6
- MUSIC: add tests.sh file to run the tests · cf94bb20
  Laurent Modolo authored 6 years ago
  
  cf94bb20
Aug 27, 2018
- training_dataset.nf: rename output · fb655dc5
  Laurent Modolo authored 6 years ago
  
  fb655dc5
- MUISC: .config: update config to match last single nf · 666d47e1
  Laurent Modolo authored 6 years ago
  
  666d47e1
- peak_calling_single.nf: select lp0 autoamtically · 51f89832
  Laurent Modolo authored 6 years ago
  
  51f89832
Aug 24, 2018
- training_dataset: add bam indexing step · 3bc22f3a
  Laurent Modolo authored 6 years ago
  
  3bc22f3a
- training_dataset.nf: fix filtering for single-end · 911287b2
  Laurent Modolo authored 6 years ago
  
  911287b2
- MUSIC: nf files for single-end data · 29267096
  Laurent Modolo authored 6 years ago
  
  29267096
- MUSIC: add samtools to the Dockerfile · 5f461c3d
  Laurent Modolo authored 6 years ago
  
  5f461c3d
Aug 23, 2018
- training_dataset.nf: add command example in header · f842d100
  Laurent Modolo authored 6 years ago
  
  f842d100
- add pipeline to create training dataset · 6f2eec1e
  Laurent Modolo authored 6 years ago
  
  6f2eec1e
Aug 22, 2018
- UrQt: update nf structure · 12e1d05a
  Laurent Modolo authored 6 years ago
  
  12e1d05a
- SRAtoolkit: update nf strcuture and improve script · 854a2a43
  Laurent Modolo authored 6 years ago
  
  854a2a43
- SAMtools: update nf structure · 67c4ff01
  Laurent Modolo authored 6 years ago
  
  67c4ff01
- RSEM: fix Dockerfile · eab4cb6b
  Laurent Modolo authored 6 years ago
  
  eab4cb6b
- RSEM: update nf structure · a4a0d6f0
  Laurent Modolo authored 6 years ago
  
  a4a0d6f0
- MultiQC: update nf structure · 927521d7
  Laurent Modolo authored 6 years ago
  
  927521d7
- Kallisto: update nf structure · 0c1bbd59
  Laurent Modolo authored 6 years ago
  
  0c1bbd59
- SAMtools: fix SGE config · 6ff0f7e2
  Laurent Modolo authored 6 years ago
  
  6ff0f7e2
- HTSeq: update nf structure · 0d1550a8
  Laurent Modolo authored 6 years ago
  
  0d1550a8
- FastQC: update nf structure · 419991ef
  Laurent Modolo authored 6 years ago
  
  419991ef
- Cutadapt: update nf structure · b5d57719
  Laurent Modolo authored 6 years ago
  
  b5d57719
- Bowtie2: update nf structure · 7aafb53f
  Laurent Modolo authored 6 years ago
  
  7aafb53f
- BEDtools: update nf structure · 2a991dc6
  Laurent Modolo authored 6 years ago
  
  2a991dc6