Commits · 5637bfd5577726485b70dfcfa4d63f512832aa25 · genotoul-bioinfo / ngspipelines

Mar 24, 2017
- integrate Cedric comment on gene_name extraction and species name extraction from db description. · 5637bfd5
  Celine Noirot authored 8 years ago
  
  5637bfd5
Mar 16, 2017
- Set default memory of snpeff to JAVA_HUGE_MEM · 068d272f
  Celine Noirot authored 8 years ago
  
  068d272f
Mar 13, 2017
- Avoid X adding before library name when library name begin by a number. · 89f3e0c2
  Celine Noirot authored 8 years ago
  
  89f3e0c2
Mar 02, 2017
- Do not crash on gff3 empty line · 72868917
  Celine Noirot authored 8 years ago
  
  72868917
- Delete useless function · f61ab76b
  Celine Noirot authored 8 years ago
  
  f61ab76b
- Try to handle species in refseq database. · 93a7ae2f
  Celine Noirot authored 8 years ago
  
  93a7ae2f
Feb 27, 2017
- Get species from swissprot definition · c44ea033
  Celine Noirot authored 8 years ago
  
  Force creation of symbolic link in addinstance.
  c44ea033
Feb 17, 2017
- Change quote of renameRules component to pass on cluster env. · 545b4e51
  Celine Noirot authored 8 years ago
  
  545b4e51
- Change orde of renameRules component to pass on cluster env. · 0998f945
  Celine Noirot authored 8 years ago
  
  0998f945
Feb 10, 2017
- handle snpeff3.6 files · 707723dd
  Celine Noirot authored 8 years ago
  
  707723dd
Feb 09, 2017
- correct test for Go and Keyword file · 293401e5
  Celine Noirot authored 8 years ago
  
  293401e5
Feb 03, 2017
- Config nb thread for diamond · 7311acc9
  Celine Noirot authored 8 years ago
  
  Convert gene name in upper case
  7311acc9
Jan 30, 2017
- Add option --split to provide number of contig · c6f337c6
  Celine Noirot authored 8 years ago
  
  c6f337c6
Jan 17, 2017
- debug · 9e189bfc
  Celine Noirot authored 8 years ago
  
  9e189bfc
Jan 16, 2017
- parallelize tSNPannot and snpEff · 6c61d7d0
  Celine Noirot authored 8 years ago
  
  debug rename rules with only prefix
  6c61d7d0
Jan 13, 2017
- Debug GO check format. · e56c7f8e
  Celine Noirot authored 8 years ago
  
  e56c7f8e
Jan 12, 2017
- Add transdecoder as a component. · 7d8bca9b
  Celine Noirot authored 8 years ago
  
  Can load orf and snp effect
  7d8bca9b
Jan 10, 2017
- Remove snpEff in loading function. · d6824381
  Celine Noirot authored 8 years ago
  
  d6824381
- Adapt to snpEff 4.2 · c988931a
  Celine Noirot authored 8 years ago
  
  c988931a
- remove empty line · 20feac6e
  Celine Noirot authored 8 years ago
  
  20feac6e
Jan 09, 2017
- Add SnpEff Analysis · 270f04de
  Celine Noirot authored 8 years ago
  
  270f04de
Jan 04, 2017
- Debug with source from prod. · 040344fe
  Celine Noirot authored 8 years ago
  
  040344fe
- Add diamond aligner · 405f52eb
  Celine Noirot authored 8 years ago
  
  405f52eb
Nov 03, 2016
- help update Differential Expression analysis: task 1638 (RNAbrowse) · eaabbeb8
  Claire Hoede authored 8 years ago
  
  eaabbeb8
- help update Differential Expression analysis: task 1638 (RNAbrowse) · 50048ea5
  Claire Hoede authored 8 years ago
  
  50048ea5
Aug 02, 2016
- Remove output directory from shell execution to avoid directory to be removed... · dc4a29bb
  Celine Noirot authored 8 years ago
  
  Remove output directory from shell execution to avoid directory to be removed when a rerun is called.
  dc4a29bb
Jul 19, 2016
- updated varna.jar -> forna.js · ef6ef282
  rongaro rongaro authored 8 years ago
  
  added forna controls deleted varna-3.9.jar
  ef6ef282
Jul 04, 2016
- Deub snp optimisation, · 3926b1e1
  Celine Noirot authored 8 years ago
  
  change min-cov works on subject and no more on query.
  3926b1e1
Jun 22, 2016
- Call correctly haplotype caller · 23d9d52f
  Celine Noirot authored 8 years ago
  
  23d9d52f
Jun 16, 2016
- Enable and disable Run button when an analyse is running · c8444e45
  Celine Noirot authored 8 years ago
  
  c8444e45
Jun 15, 2016
- debug eyes open · d3b76c3c
  Celine Noirot authored 8 years ago
  
  d3b76c3c
- Derniere modif affichage Philippe · 4092836e
  Celine Noirot authored 8 years ago
  
  4092836e
Jun 13, 2016
- Optimize SNP calling. · 069d472c
  Celine Noirot authored 8 years ago
  
  069d472c
Jun 09, 2016
- Useless work of pavel · 300c79d2
  Celine Noirot authored 8 years ago
  
  300c79d2
- Changement orientation lib name + echelle log · dc181a07
  Celine Noirot authored 8 years ago
  
  dc181a07
- Reorganize section options. · 1fd70c4f
  Celine Noirot authored 8 years ago
  
  Add comment in load config file
  1fd70c4f
Jun 08, 2016
- Config file commented to help usage. · 7a046f83
  Celine Noirot authored 8 years ago
  
  7a046f83
- Config file commented to help usage. · 1bf503d3
  Celine Noirot authored 8 years ago
  
  1bf503d3
- Correct 2 things : · 574bf11e
  Celine Noirot authored 8 years ago
  
  - do not zip merge_count.cvs - no more need to have same lib name and fastq file name.
  574bf11e
- Debug favorite · 691c5ecd
  Celine Noirot authored 8 years ago
  
  691c5ecd