Commits

Breadcrumbs

History for

onmaster

User selector

All users

Datepicker

All time

Commit History

Commits on Jul 12, 2022

• fix typo in modules.config

  rannick

  committed
  8ef2352

  Copy full SHA for 8ef2352

Commits on Jul 11, 2022

• Merge branch 'add_trim_workflow' into arriba_update

  rannick

  authored
  a3c3468

  Copy full SHA for a3c3468

• Merge branch 'dev' into arriba_update

  rannick

  authored
  df56e92

  Copy full SHA for df56e92

• Merge branch 'dev' into add_trim_workflow

  rannick

  authored
  16fc53b

  Copy full SHA for 16fc53b

• remove arriba download

  rannick

  committed
  f7f2910

  Copy full SHA for f7f2910

• separate folder for fastqc of trimmed reads

  rannick

  committed
  e290ebb

  Copy full SHA for e290ebb

• hard trim to 75 bp when trimming

  rannick

  committed
  f2d7372

  Copy full SHA for f2d7372

Commits on Jul 5, 2022

• add arguments to reformat

  rannick

  committed
  cd9ba0f

  Copy full SHA for cd9ba0f

Commits on Jun 30, 2022

• add STAR_xtra_params in modules.conf

  rannick

  committed
  a4d326d

  Copy full SHA for a4d326d

• Merge branch 'dev' into limitSjdbInsertNsj_param

  rannick

  authored
  7db1976

  Copy full SHA for 7db1976

• add parameters fusioncatcher_limitSjdbInsertNsj and fusioninsepctor_limitSjdbInsertNsj and use modules.config to feed to fusioncatcher

  rannick

  committed
  07cad6f

  Copy full SHA for 07cad6f

Commits on Jun 28, 2022

• add checks to not run other tools/qc when fusioninspector_only is true

  rannick

  committed
  345a966

  Copy full SHA for 345a966

Commits on May 18, 2022

• use samplesheet from nf-core/test-dataset for testing

  rannick

  committed
  8005728

  Copy full SHA for 8005728

Commits on May 12, 2022

• remove commented arriba args and add samtools_index squid publish dir

  rannick

  committed
  d7aa74b

  Copy full SHA for d7aa74b

Commits on May 6, 2022

• add blacklist and protein domain via input instead of args by changing arriba module (tmp fix)

  rannick

  committed
  2c3d095

  Copy full SHA for 2c3d095

Commits on May 4, 2022

• remove collected_fusion folder

  rannick

  committed
  1e96bed

  Copy full SHA for 1e96bed

Commits on Apr 14, 2022

• address TODOs and update usage for starfusion_build

  rannick

  committed
  10a6011

  Copy full SHA for 10a6011

Commits on Apr 13, 2022

• add test full build and replace genomes.config parameters with absolute paths

  rannick

  committed
  ef624f6

  Copy full SHA for ef624f6

• use getGenomeAttribute for parameters in genomes.config only

  rannick

  committed
  cd31b8b

  Copy full SHA for cd31b8b

• make test.config simpler and set the different options in ci.yml

  rannick

  committed
  6bde30c

  Copy full SHA for 6bde30c

• qc steps run also for --all

  rannick

  committed
  69ea09d

  Copy full SHA for 69ea09d

• modify genomes.config

  rannick

  committed
  5eea06f

  Copy full SHA for 5eea06f

Commits on Apr 1, 2022

• Merge branch 'dev' into polishing

  rannick

  authored
  aeb5202

  Copy full SHA for aeb5202

• update nf-core modules sha5 and genomes.conf

  rannick

  committed
  8bed262

  Copy full SHA for 8bed262

Commits on Mar 31, 2022

• update genoms.config

  rannick

  committed
  6099a03

  Copy full SHA for 6099a03

• update genoms.config

  rannick

  committed
  6c00c4d

  Copy full SHA for 6c00c4d

Commits on Mar 28, 2022

• --fasta no longer required and --input not required with --build_references

  rannick

  committed
  27cd92d

  Copy full SHA for 27cd92d

• publish mode copy to publish_dir_mode

  rannick

  committed
  0ef71dd

  Copy full SHA for 0ef71dd

Commits on Mar 25, 2022

• merge fixes

  rannick

  committed
  8becb5c

  Copy full SHA for 8becb5c

Commits on Mar 23, 2022

• update docs

  rannick

  committed
  b6e1b3b

  Copy full SHA for b6e1b3b

Commits on Mar 22, 2022

• Merge branch 'dev' into qc

  rannick

  authored
  f7595f2

  Copy full SHA for f7595f2

• install picard/markduplicates

  rannick

  committed
  e8ec52c

  Copy full SHA for e8ec52c

Commits on Mar 21, 2022

• publish samtools index into different dirs by alias

  rannick

  committed
  c262031

  Copy full SHA for c262031

• position of fasta transcript and gtf moved into ensembl_ref

  rannick

  committed
  11dff2a

  Copy full SHA for 11dff2a

Commits on Mar 20, 2022

• draft documentation, remove ericscript, bump ensembl version to 105

  rannick

  committed
  3c1d6ea

  Copy full SHA for 3c1d6ea

Pagination

Previous

Next