Skip to content

GitLab

Explore

Sign in

Primary navigation

Project

B

biopet.biopet
- Activity
- Members
- Environments

Snippets Groups Projects

91e72434

Commit 91e72434 authored 10 years ago by Peter van 't Hof

Downloads
- Patches
- Plain Diff

Switch Gatk pipeline and Basty to new multisample classes

parent 49ba8c53

No related branches found

No related tags found

No related merge requests found

Changes 7

Hide whitespace changes

Inline Side-by-side

Showing

protected/basty/src/main/scala/nl/lumc/sasc/biopet/pipelines/basty/Basty.scala 34 additions, 40 deletions

...ain/scala/nl/lumc/sasc/biopet/pipelines/basty/Basty.scala
protected/biopet-gatk-extensions/src/main/scala/nl/lumc/sasc/biopet/extensions/gatk/ApplyRecalibration.scala 6 additions, 4 deletions

...lumc/sasc/biopet/extensions/gatk/ApplyRecalibration.scala
protected/biopet-gatk-extensions/src/main/scala/nl/lumc/sasc/biopet/extensions/gatk/VariantRecalibrator.scala 0 additions, 2 deletions

...umc/sasc/biopet/extensions/gatk/VariantRecalibrator.scala
protected/biopet-gatk-pipelines/src/main/scala/nl/lumc/sasc/biopet/pipelines/gatk/GatkPipeline.scala 124 additions, 28 deletions

...ala/nl/lumc/sasc/biopet/pipelines/gatk/GatkPipeline.scala
protected/biopet-gatk-pipelines/src/main/scala/nl/lumc/sasc/biopet/pipelines/gatk/GatkVariantcalling.scala 20 additions, 11 deletions

.../lumc/sasc/biopet/pipelines/gatk/GatkVariantcalling.scala
public/biopet-framework/src/main/scala/nl/lumc/sasc/biopet/core/MultiSampleQScript.scala 3 additions, 3 deletions

...n/scala/nl/lumc/sasc/biopet/core/MultiSampleQScript.scala
public/sage/src/main/scala/nl/lumc/sasc/biopet/pipelines/sage/Sage.scala 5 additions, 5 deletions

.../main/scala/nl/lumc/sasc/biopet/pipelines/sage/Sage.scala

with 192 additions and 93 deletions

Loading

0% Loading or .

You are about to add 0 people to the discussion. Proceed with caution.

Finish editing this message first!

Please register or sign in to comment