Commits · 5eae8fe15774a5c65b4d92d2ecd537816f86389c · Xavier Grand / ChIPster · GitLab

Snippets Groups Projects

Jun 28, 2021
- gatk4: add gvcf to variant_calling_out · 5eae8fe1
  Laurent Modolo authored 3 years ago
  
  Verified
  
  5eae8fe1
Jun 24, 2021
- docker: add htseq 0.13.5 · ed5b2f47
  Laurent Modolo authored 3 years ago
  
  Verified
  
  ed5b2f47
Jun 22, 2021
- gatk4: change file_prefix definition to handle Map · 2e4cc629
  Laurent Modolo authored 3 years ago
  
  Verified
  
  2e4cc629
Jun 21, 2021
- gatk4: remove map only usefull for testing · d42ded32
  Laurent Modolo authored 3 years ago
  
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  d42ded32
Jun 17, 2021
- example_variant_calling.nf: fix input channel · 5d11b597
  Laurent Modolo authored 3 years ago
  
  Verified
  
  5d11b597
- gatk4: working variant calling pipeline · 2dcade89
  Laurent Modolo authored 3 years ago
  
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  2dcade89
Jun 16, 2021
- example_marseq.nf: cosmetic changes · 6b6d059a
  Laurent Modolo authored 3 years ago
  
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  6b6d059a
Jun 09, 2021
- deeptools: fix docker file for 3.5.1 · 8d92ac19
  Laurent Modolo authored 3 years ago
  
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  8d92ac19
Jun 04, 2021
- deeptools: add libcurl3 dependency · 414cc8b9
  Laurent Modolo authored 3 years ago
  
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  414cc8b9
- mutliqc: add flatten step · 3808033c
  Laurent Modolo authored 3 years ago
  
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  3808033c
- bowtie2: fix switch :67 · c05b8c6a
  Laurent Modolo authored 3 years ago
  
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  c05b8c6a
- multiqc: fix process name · 3cd8d74f
  Laurent Modolo authored 3 years ago
  
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  3cd8d74f
- multiqc: add comments on usage · 1ae0c21d
  Laurent Modolo authored 3 years ago
  
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  1ae0c21d
- multiqc: add workflow to perform report channel cleanning · 84b2ae0e
  Laurent Modolo authored 3 years ago
  
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  84b2ae0e
- cleanup DSL1 test.sh · 2150d981
  Laurent Modolo authored 3 years ago
  
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  2150d981
- switcth to nextflow DSL2 · cc2d49f6
  Laurent Modolo authored 3 years ago
  
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  cc2d49f6
Jun 02, 2021
- Docker: add emase 0.10.16 · 6614fc01
  Laurent Modolo authored 3 years ago
  
  v2.0.0 Verified
  
  6614fc01
- example_marseq.nf: add log for config file · 99c06a7a
  Laurent Modolo authored 3 years ago
  
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  99c06a7a
- example_marseq.nf: add vecloty example · 36dac5e3
  Laurent Modolo authored 3 years ago
  
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  36dac5e3
- kb: add velocity workflow · 753be570
  Laurent Modolo authored 3 years ago
  
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  753be570
- example_variant_calling.nf: fix fasta var · c8aeb67c
  Laurent Modolo authored 3 years ago
  
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  c8aeb67c
- fix typo · 0d45b587
  Laurent Modolo authored 3 years ago
  
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  0d45b587
- example_variant_calling.nf: fix typo :12 · 626e46bb
  Laurent Modolo authored 3 years ago
  
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  626e46bb
- gatk4: fix include path · 179127d0
  Laurent Modolo authored 3 years ago
  
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  179127d0
- gatk4: fix include path · 78ed7b01
  Laurent Modolo authored 3 years ago
  
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  78ed7b01
- fix emit: for named workflow · 92e0e00a
  Laurent Modolo authored 3 years ago
  
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  92e0e00a
- add example of variant calling with gatk4 · e363dd6f
  Laurent Modolo authored 3 years ago
  
  Verified
  
  e363dd6f
- bwa: add mapping workflow · 6f67c65c
  Laurent Modolo authored 3 years ago
  
  Verified
  
  6f67c65c
Jun 01, 2021
- gatk4: first version of new variant calling workflow · 94772e16
  Laurent Modolo authored 3 years ago
  
  Verified
  
  94772e16
May 31, 2021
- emase-zero: remove collect() :20 · d22860c2
  Laurent Modolo authored 3 years ago
  
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  d22860c2
- emaze: change input to follow change to t2g in kb main.nf · 9293f190
  Laurent Modolo authored 3 years ago
  
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  9293f190
May 28, 2021
- example_marseq.nf: add illumina adaptor removal · 3de4d8de
  Laurent Modolo authored 3 years ago
  
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  3de4d8de
- working example of marseq analysis · 6bddba37
  Laurent Modolo authored 3 years ago
  
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  6bddba37
- kb: working marseq quantif pipeline · d448ef6a
  Laurent Modolo authored 3 years ago
  
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  d448ef6a
May 26, 2021
- emaze: change imput from gtf to fasta to compute transcript length · 4eef1122
  Laurent Modolo authored 3 years ago
  
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  4eef1122
- alntools: separate transcript length computation · 6231fc3f
  Laurent Modolo authored 3 years ago
  
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  6231fc3f
May 25, 2021
- gffread: add awk cmd to remove duplicated transcript · c355cfa8
  Laurent Modolo authored 3 years ago
  
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  c355cfa8
May 21, 2021
- gffread: add -x and -M option · d62c64d2
  Laurent Modolo authored 3 years ago
  
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  d62c64d2
- gffread: add -x option · b9a27794
  Laurent Modolo authored 3 years ago
  
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  b9a27794
May 20, 2021
- gffread: add main.nf · 3dd05762
  Laurent Modolo authored 3 years ago
  
  Verified
  
  3dd05762