Commits · 77f8dab4d51ed53200a7371bd3fb5668fa41fda8 · bioinfo / ngs_tools

Jun 01, 2016
- Merge branch 'master' of git.mpi-cbg.de:bioinfo/ngs_tools · 77f8dab4
  Holger Brandl authored 8 years ago
  
  77f8dab4
- added bioinfo-srv1 compatibility · 5b43501d
  Holger Brandl authored 8 years ago
  
  5b43501d
May 30, 2016
- added iml files to ignore list · bfd3043e
  Holger Brandl authored 8 years ago
  
  bfd3043e
- avoid that _2.fastqs are mapping · 3ce7f8c4
  Holger Brandl authored 8 years ago
  
  3ce7f8c4
May 26, 2016
- use abs.max for gene aggregation · 49891eaf
  Holger Brandl authored 8 years ago
  
  49891eaf
May 25, 2016
- switched back to furiosa config · b31b589b
  Holger Brandl authored 8 years ago
  
  b31b589b
- Merge branch 'master' of git.mpi-cbg.de:bioinfo/ngs_tools · 5e202da3
  Holger Brandl authored 8 years ago
  
  5e202da3
- fixed madmax config · ee236d89
  Holger Brandl authored 8 years ago
  
  ee236d89
May 20, 2016
- expose q-cutoff as parameter · 070c2f76
  Holger Brandl authored 8 years ago
  
  070c2f76
May 19, 2016
- cosmetics · 87cd7170
  Holger Brandl authored 8 years ago
  
  87cd7170
- Merge remote-tracking branch 'remotes/origin/madmax' · 2faeefc3
  Holger Brandl authored 8 years ago
  
  2faeefc3
May 17, 2016
- disabled saving of plotdata · fc573a87
  Holger Brandl authored 8 years ago
  
  fc573a87
- cosmetics · 92a54c21
  Holger Brandl authored 8 years ago
  
  92a54c21
May 13, 2016
- deseq workflow cosmetics · aea6b362
  Holger Brandl authored 8 years ago
  
  aea6b362
May 12, 2016
- cont mf-deseq · 5b9dc042
  Holger Brandl authored 8 years ago
  
  5b9dc042
- cont furiosa porting of rna-seq workflow · 22279176
  Holger Brandl authored 8 years ago
  
  22279176
- clean up and tool deprecation · 10fdfc65
  Holger Brandl authored 8 years ago
  
  10fdfc65
- improved deseq reporting · a4056b0f
  Holger Brandl authored 8 years ago
  
  a4056b0f
May 11, 2016
- cont. mf deseq · b485c9e1
  Holger Brandl authored 8 years ago
  
  b485c9e1
- cont mf deseq · ffc16c40
  Holger Brandl authored 8 years ago
  
  ffc16c40
May 10, 2016
- started new mf deseq · 2d9c0213
  Holger Brandl authored 8 years ago
  
  2d9c0213
- fixed dependencies · 089f52cb
  Holger Brandl authored 8 years ago
  
  089f52cb
- Merge remote-tracking branch 'remotes/origin/master' into madmax · 68beea46
  Holger Brandl authored 8 years ago
  
  68beea46
May 09, 2016
- add fpkm export to featcounts_deseq · d3488019
  Holger Brandl authored 8 years ago
  
  d3488019
May 04, 2016
- fixed typo in cleanup section · 398c04b4
  Holger Brandl authored 8 years ago
  
  398c04b4
- fixed memory and walltime · af05af46
  Holger Brandl authored 8 years ago
  
  af05af46
Apr 28, 2016
- more robust fastqc wrapper · 59b6e27e
  Holger Brandl authored 8 years ago
  
  59b6e27e
Apr 20, 2016
- revised tool to calculate genic tag proportions · 7438871a
  Holger Brandl authored 8 years ago
  
  7438871a
Apr 12, 2016
- prepared migration to furiosa · a55576b7
  Holger Brandl authored 8 years ago
  
  a55576b7
Apr 08, 2016
- updated bam correlation to work with latest deeptools. @lakshman v2.2.2 of... · 740c4ae0
  Holger Brandl authored 8 years ago
  
  updated bam correlation to work with latest deeptools. @lakshman v2.2.2 of deeptools is required now to run the star-workflow
  740c4ae0
- changed to use ngs_tools master by default · 44ecad36
  Holger Brandl authored 8 years ago
  
  44ecad36
- separated star and b1 workflows · e797a356
  Holger Brandl authored 8 years ago
  
  e797a356
Apr 06, 2016
- refined star workflow · 01b4dab6
  Holger Brandl authored 8 years ago
  
  01b4dab6
Apr 04, 2016
- fixed incorrect wall time · 342c00c5
  Holger Brandl authored 8 years ago
  
  342c00c5
Apr 01, 2016
- improved bash style · 944e014f
  Holger Brandl authored 8 years ago
  
  944e014f
Mar 24, 2016

changed to use more recent version v2.2.2 of deeptools. @lakshman to switch as... · 8fcaca17

Holger Brandl authored 9 years ago

changed to use more recent version v2.2.2 of deeptools. @lakshman to switch as well, you'll need to do a user install for your account first I guess. This is because I cant do a global installation on the cluster.

8fcaca17

Mar 21, 2016
- added cs notes · d76d3b95
  Holger Brandl authored 9 years ago
  
  d76d3b95
Mar 17, 2016
- changed default aligner wrapper to kts-version · b7921c6e
  Holger Brandl authored 9 years ago
  
  b7921c6e
- require existence of fastq inputs · 4189ca94
  Holger Brandl authored 9 years ago
  
  4189ca94
- save cached jar next to script until #5 is fixed. · 8b2eaaaf
  Holger Brandl authored 9 years ago
  
  8b2eaaaf