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Releases: gatk-workflows/gatk4-somatic-cnvs

1.4.0

11 Oct 20:36
@bshifaw bshifaw
1.4.0
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1.4.0 Pre-release
Pre-release
  • Added funcotate wdl
  • "Enable gc correction by default in cnv workflows" (#5966)
  • Minor updates to Readme
  • Simplified json and changed parameters to use funcotator
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1.3.1

23 May 21:24
@bshifaw bshifaw
1.3.1
4a74b08
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1.3.1 Latest
Latest
  • do_explicit_gc_correction changed to be True by default. Greatly improves results on FFPE samples when it is enabled.
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1.3.0

11 Apr 12:13
@bshifaw bshifaw
1.3.0
631b999
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1.3.0
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1.2.0

14 Feb 14:33
@bshifaw bshifaw
1.2.0
08c3f76
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1.2.0

Updated to GATK4.1 release.
Updated import to Git release tag URLs

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1.1.0

17 Aug 17:42
@bshifaw bshifaw
1.1.0
fd444bf
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1.1.0

Updated to gatk4.0.8.0 release

  • Exposed ability to blacklist intervals in CNV WDLs.
  • Added output of IGV-compatible .seg files to ModelSegments.
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Initial Release of Somatic CNV

25 May 19:05
@bshifaw bshifaw
1.0.0
5f04aec
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Initial Release of Somatic CNV

This is the initial release of the workflow for running Somatic CNV.
It includes the following main WDLs

  • Building a panel of normals (PoN): cnv_somatic_panel_workflow.wdl
  • Running a matched pair: cnv_somatic_pair_workflow.wdl

Suboworkflows called by the main workflows are listed bellow

  • cnv_somatic_oncotator_workflow.wdl
  • cnv_common_tasks.wdl

Example Json files are present for demonstration purposes only.

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