Commits · 139175cb6897038862b2f19583a25c7332a2ba23 · LBMC / ReGArDS / nextflow

22 Aug, 2018 16 commits
- Merge branch 'dev' · 139175cb
  Laurent Modolo authored Aug 22, 2018
  
  139175cb
- add changelog · 7aaaa9ed
  Laurent Modolo authored Aug 22, 2018
  
  7aaaa9ed
- UrQt: update nf structure · 12e1d05a
  Laurent Modolo authored Aug 22, 2018
  
  12e1d05a
- SRAtoolkit: update nf strcuture and improve script · 854a2a43
  Laurent Modolo authored Aug 22, 2018
  
  854a2a43
- SAMtools: update nf structure · 67c4ff01
  Laurent Modolo authored Aug 22, 2018
  
  67c4ff01
- RSEM: fix Dockerfile · eab4cb6b
  Laurent Modolo authored Aug 22, 2018
  
  eab4cb6b
- RSEM: update nf structure · a4a0d6f0
  Laurent Modolo authored Aug 22, 2018
  
  a4a0d6f0
- MultiQC: update nf structure · 927521d7
  Laurent Modolo authored Aug 22, 2018
  
  927521d7
- Kallisto: update nf structure · 0c1bbd59
  Laurent Modolo authored Aug 22, 2018
  
  0c1bbd59
- SAMtools: fix SGE config · 6ff0f7e2
  Laurent Modolo authored Aug 22, 2018
  
  6ff0f7e2
- HTSeq: update nf structure · 0d1550a8
  Laurent Modolo authored Aug 22, 2018
  
  0d1550a8
- FastQC: update nf structure · 419991ef
  Laurent Modolo authored Aug 22, 2018
  
  419991ef
- Cutadapt: update nf structure · b5d57719
  Laurent Modolo authored Aug 22, 2018
  
  b5d57719
- Bowtie2: update nf structure · 7aafb53f
  Laurent Modolo authored Aug 22, 2018
  
  7aafb53f
- BEDtools: update nf structure · 2a991dc6
  Laurent Modolo authored Aug 22, 2018
  
  2a991dc6
- Bowtie: update nf structure · 4afb1981
  Laurent Modolo authored Aug 22, 2018
  
  4afb1981
21 Aug, 2018 1 commit
- README.md: fix typo · a4809608
  Laurent Modolo authored Aug 21, 2018
  
  a4809608
02 Aug, 2018 9 commits
- cutadapt: nf file add file_id var for single-end like for paired · a6ae64ae
  Laurent Modolo authored Aug 02, 2018
  
  a6ae64ae
- Bowtie: nf add file_id var for single-end like for paired-end · f9a6c22f
  Laurent Modolo authored Aug 02, 2018
  
  f9a6c22f
- Kallisto: nf add file_id var for single-end like for paired-end · 2ce05607
  Laurent Modolo authored Aug 02, 2018
  
  2ce05607
- MultiQC: update test to match fastqc.nf · 1fbc5ef8
  Laurent Modolo authored Aug 02, 2018
  
  1fbc5ef8
- UrQt: nf add file_id var for single-end like for paired-end · c82cceba
  Laurent Modolo authored Aug 02, 2018
  
  c82cceba
- RSEM: nf add file_id var in single-end like for paired-end · 7ed402cc
  Laurent Modolo authored Aug 02, 2018
  
  7ed402cc
- FastQC: add id_file var for single-end like for paired-end · 9496c2db
  Laurent Modolo authored Aug 02, 2018
  
  9496c2db
- Bowtie2: modify single-end to have a file_id variable like for · 81a2d4bb
  Laurent Modolo authored Aug 02, 2018
```
paired-end
```
  81a2d4bb
- RSEM: change toList to collect · 52e09505
  Laurent Modolo authored Aug 02, 2018
  
  52e09505
31 Jul, 2018 6 commits
- Kallisto: change toList to collect · c7a2d66d
  Laurent Modolo authored Jul 31, 2018
  
  c7a2d66d
- Bowtie2: change toList to collect · 9af182a1
  Laurent Modolo authored Jul 31, 2018
  
  9af182a1
- Bowtie: change toList to collect · 3680aa85
  Laurent Modolo authored Jul 31, 2018
  
  3680aa85
- Bowtie: update Bowtie.nf to match test · 78bebd72
  Laurent Modolo authored Jul 31, 2018
  
  78bebd72
- README.md: update upstream url · e98e98b6
  Laurent Modolo authored Jul 31, 2018
  
  e98e98b6
- Bowtie: fix single mapping and index parsing · cc81bec2
  Laurent Modolo authored Jul 31, 2018
  
  cc81bec2
30 Jul, 2018 3 commits
- Bowti2: modify index handle to better deal with weird file names · ff9f90af
  Laurent Modolo authored Jul 30, 2018
  
  ff9f90af
- Bowtie2: add perl dependency and fix single-end example · af1d5130
  Laurent Modolo authored Jul 30, 2018
  
  af1d5130
- fix typo in nf files · 3d5118d9
  Laurent Modolo authored Jul 30, 2018
  
  3d5118d9
27 Jul, 2018 5 commits
- picard: add sge modules · 4f6d0692
  Laurent Modolo authored Jul 27, 2018
  
  4f6d0692
- README.md: add picard to tool table · 7795efad
  Laurent Modolo authored Jul 27, 2018
  
  7795efad
- Picard/2.18.11: add Dockerfiles · 2bf54bd2
  Laurent Modolo authored Jul 27, 2018
  
  2bf54bd2
- README.md: update tools table for MACS2 · 8b218461
  Laurent Modolo authored Jul 27, 2018
  
  8b218461
- update sge_modules · ee478e18
  Laurent Modolo authored Jul 27, 2018
  
  ee478e18