Commits · c43032e6ca19b76ab902108f30774c690579d116 · LBMC / Delattre / JU28_59vs17_SNP · GitLab

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Aug 31, 2018
- Kallisto: fix tests.sh · c43032e6
  Laurent Modolo authored 6 years ago
  
  Unverified
  
  c43032e6
Aug 29, 2018
- MUSIC: change read size param · 3bbe96f6
  Laurent Modolo authored 6 years ago
  
  Unverified
  
  3bbe96f6
- MUSIC: add tests.sh file to run the tests · cf94bb20
  Laurent Modolo authored 6 years ago
  
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  cf94bb20
Aug 27, 2018
- training_dataset.nf: rename output · fb655dc5
  Laurent Modolo authored 6 years ago
  
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  fb655dc5
- MUISC: .config: update config to match last single nf · 666d47e1
  Laurent Modolo authored 6 years ago
  
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  666d47e1
- peak_calling_single.nf: select lp0 autoamtically · 51f89832
  Laurent Modolo authored 6 years ago
  
  Unverified
  
  51f89832
Aug 24, 2018
- training_dataset: add bam indexing step · 3bc22f3a
  Laurent Modolo authored 6 years ago
  
  Unverified
  
  3bc22f3a
- training_dataset.nf: fix filtering for single-end · 911287b2
  Laurent Modolo authored 6 years ago
  
  Unverified
  
  911287b2
- MUSIC: nf files for single-end data · 29267096
  Laurent Modolo authored 6 years ago
  
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  29267096
- MUSIC: add samtools to the Dockerfile · 5f461c3d
  Laurent Modolo authored 6 years ago
  
  Unverified
  
  5f461c3d
Aug 23, 2018
- training_dataset.nf: add command example in header · f842d100
  Laurent Modolo authored 6 years ago
  
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  f842d100
- add pipeline to create training dataset · 6f2eec1e
  Laurent Modolo authored 6 years ago
  
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  6f2eec1e
Aug 22, 2018
- UrQt: update nf structure · 12e1d05a
  Laurent Modolo authored 6 years ago
  
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  12e1d05a
- SRAtoolkit: update nf strcuture and improve script · 854a2a43
  Laurent Modolo authored 6 years ago
  
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  854a2a43
- SAMtools: update nf structure · 67c4ff01
  Laurent Modolo authored 6 years ago
  
  Verified
  
  67c4ff01
- RSEM: fix Dockerfile · eab4cb6b
  Laurent Modolo authored 6 years ago
  
  Verified
  
  eab4cb6b
- RSEM: update nf structure · a4a0d6f0
  Laurent Modolo authored 6 years ago
  
  Verified
  
  a4a0d6f0
- MultiQC: update nf structure · 927521d7
  Laurent Modolo authored 6 years ago
  
  Verified
  
  927521d7
- Kallisto: update nf structure · 0c1bbd59
  Laurent Modolo authored 6 years ago
  
  Verified
  
  0c1bbd59
- SAMtools: fix SGE config · 6ff0f7e2
  Laurent Modolo authored 6 years ago
  
  Verified
  
  6ff0f7e2
- HTSeq: update nf structure · 0d1550a8
  Laurent Modolo authored 6 years ago
  
  Verified
  
  0d1550a8
- FastQC: update nf structure · 419991ef
  Laurent Modolo authored 6 years ago
  
  Verified
  
  419991ef
- Cutadapt: update nf structure · b5d57719
  Laurent Modolo authored 6 years ago
  
  Verified
  
  b5d57719
- Bowtie2: update nf structure · 7aafb53f
  Laurent Modolo authored 6 years ago
  
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  7aafb53f
- BEDtools: update nf structure · 2a991dc6
  Laurent Modolo authored 6 years ago
  
  Verified
  
  2a991dc6
- Bowtie: update nf structure · 4afb1981
  Laurent Modolo authored 6 years ago
  
  Verified
  
  4afb1981
Aug 02, 2018
- cutadapt: nf file add file_id var for single-end like for paired · a6ae64ae
  Laurent Modolo authored 6 years ago
  
  v0.2.4 Verified
  
  a6ae64ae
- Bowtie: nf add file_id var for single-end like for paired-end · f9a6c22f
  Laurent Modolo authored 6 years ago
  
  Verified
  
  f9a6c22f
- Kallisto: nf add file_id var for single-end like for paired-end · 2ce05607
  Laurent Modolo authored 6 years ago
  
  Verified
  
  2ce05607
- MultiQC: update test to match fastqc.nf · 1fbc5ef8
  Laurent Modolo authored 6 years ago
  
  Verified
  
  1fbc5ef8
- UrQt: nf add file_id var for single-end like for paired-end · c82cceba
  Laurent Modolo authored 6 years ago
  
  Verified
  
  c82cceba
- RSEM: nf add file_id var in single-end like for paired-end · 7ed402cc
  Laurent Modolo authored 6 years ago
  
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  7ed402cc
- FastQC: add id_file var for single-end like for paired-end · 9496c2db
  Laurent Modolo authored 6 years ago
  
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  9496c2db
- Bowtie2: modify single-end to have a file_id variable like for · 81a2d4bb
  Laurent Modolo authored 6 years ago
  
  paired-end
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  81a2d4bb
- RSEM: change toList to collect · 52e09505
  Laurent Modolo authored 6 years ago
  
  Verified
  
  52e09505
Jul 31, 2018
- Kallisto: change toList to collect · c7a2d66d
  Laurent Modolo authored 6 years ago
  
  Verified
  
  c7a2d66d
- Bowtie2: change toList to collect · 9af182a1
  Laurent Modolo authored 6 years ago
  
  Verified
  
  9af182a1
- Bowtie: change toList to collect · 3680aa85
  Laurent Modolo authored 6 years ago
  
  Verified
  
  3680aa85
- Bowtie: update Bowtie.nf to match test · 78bebd72
  Laurent Modolo authored 6 years ago
  
  Verified
  
  78bebd72
- Bowtie: fix single mapping and index parsing · cc81bec2
  Laurent Modolo authored 6 years ago
  
  Verified
  
  cc81bec2