Commits · 9293f190a33f72274958347b54ab4ac5eea17ceb · LBMC / Palladino / RNAseq_nextflow

31 May, 2021 1 commit
- emaze: change input to follow change to t2g in kb main.nf · 9293f190
  Laurent Modolo authored May 31, 2021
  
  9293f190
28 May, 2021 3 commits
- example_marseq.nf: add illumina adaptor removal · 3de4d8de
  Laurent Modolo authored May 28, 2021
  
  3de4d8de
- working example of marseq analysis · 6bddba37
  Laurent Modolo authored May 28, 2021
  
  6bddba37
- kb: working marseq quantif pipeline · d448ef6a
  Laurent Modolo authored May 28, 2021
  
  d448ef6a
26 May, 2021 2 commits
- emaze: change imput from gtf to fasta to compute transcript length · 4eef1122
  Laurent Modolo authored May 26, 2021
  
  4eef1122
- alntools: separate transcript length computation · 6231fc3f
  Laurent Modolo authored May 26, 2021
  
  6231fc3f
25 May, 2021 1 commit
- gffread: add awk cmd to remove duplicated transcript · c355cfa8
  Laurent Modolo authored May 25, 2021
  
  c355cfa8
21 May, 2021 2 commits
- gffread: add -x and -M option · d62c64d2
  Laurent Modolo authored May 21, 2021
  
  d62c64d2
- gffread: add -x option · b9a27794
  Laurent Modolo authored May 21, 2021
  
  b9a27794
20 May, 2021 2 commits
- gffread: add main.nf · 3dd05762
  Laurent Modolo authored May 20, 2021
  
  3dd05762
- gffread: add version 0.12.2 · 9eb61947
  Laurent Modolo authored May 20, 2021
  
  9eb61947
18 May, 2021 2 commits
- kb: change t2g.py to use classical transcript and gene gtf format · bd5b4ace
  Laurent Modolo authored May 18, 2021
  
  bd5b4ace
- bowtie2: change file_id handling · 192fef09
  Laurent Modolo authored May 18, 2021
  
  192fef09
17 May, 2021 1 commit
- kb: fix missing \ at end of lines · 5a367584
  Laurent Modolo authored May 17, 2021
  
  5a367584
12 May, 2021 1 commit
- kb: fix t2g.py to have first transcript and then gene · fdb6eac6
  Laurent Modolo authored May 12, 2021
  
  fdb6eac6
11 May, 2021 2 commits
- cutadapt: update output name and capture · cb215113
  Laurent Modolo authored May 11, 2021
  
  cb215113
- cutadapt: update to last contributing guide version · 5af36606
  Laurent Modolo authored May 11, 2021
  
  5af36606
10 May, 2021 1 commit
- alntools: try fix for bam bai · 451c10bb
  Laurent Modolo authored May 10, 2021
  
  451c10bb
07 May, 2021 4 commits
- kb: remove view() · 972e601e
  Laurent Modolo authored May 07, 2021
  
  972e601e
- flexi_splitter: split computation per plate · 1852fe84
  Laurent Modolo authored May 07, 2021
  
  1852fe84
- flexi_splitter: fix tag :25 · 1d80497e
  Laurent Modolo authored May 07, 2021
  
  1d80497e
- flexi_splitter: fixed group_fastq process · b92686a4
  Laurent Modolo authored May 07, 2021
  
  b92686a4
06 May, 2021 7 commits
- alntools: remove chunck option · 6cc2e1a8
  Laurent Modolo authored May 06, 2021
  
  6cc2e1a8
- emase-zero: change bam to bam_idx · 833c88f7
  Laurent Modolo authored May 06, 2021
  
  833c88f7
- nf_modules: add beagle · 7dbcab2b
  Laurent Modolo authored May 06, 2021
  
  7dbcab2b
- alntools: change input to bam to indexed bam · 7212d7bc
  Laurent Modolo authored May 06, 2021
  
  7212d7bc
- alntools: add six module · 03d1b183
  Laurent Modolo authored May 06, 2021
  
  03d1b183
- flexi_splitter: double escape sed cmd · 7632aaf5
  Laurent Modolo authored May 06, 2021
  
  7632aaf5
- flexi_splitter: double escape sed cmd · c4c0f64a
  Laurent Modolo authored May 06, 2021
  
  c4c0f64a
05 May, 2021 9 commits
- alntools: add gawk to docker · 778f3cdc
  Laurent Modolo authored May 05, 2021
  
  778f3cdc
- alntools: double escape awk script · acb3143c
  Laurent Modolo authored May 05, 2021
  
  acb3143c
- nf_modules: update alntools awk · f2f617c5
  Laurent Modolo authored May 05, 2021
  
  f2f617c5
- alntools: update params names · d2c5476d
  Laurent Modolo authored May 05, 2021
  
  d2c5476d
- alntools: update transcript lengths computation · e54720be
  Laurent Modolo authored May 05, 2021
  
  e54720be
- alntools: fix docker version · f38f822f
  Laurent Modolo authored May 05, 2021
  
  f38f822f
- flexi_splitter: fix awk cmd · f089ea6b
  Laurent Modolo authored May 05, 2021
  
  f089ea6b
- kb: remove collect() call · ef62cf28
  Laurent Modolo authored May 05, 2021
  
  ef62cf28
- emase-zero: change gtf to bam cardinality to 1 to 1 · 7ccc789d
  Laurent Modolo authored May 05, 2021
  
  7ccc789d
03 May, 2021 2 commits
- flexi_splitter: fix awk cmd · 1ef49919
  Laurent Modolo authored May 03, 2021
  
  1ef49919
- flexi_splitter: fix code duplication · 447d8399
  Laurent Modolo authored May 03, 2021
  
  447d8399