Janis
stable
  • Welcome to Janis!
  • About
  • Pipeline concepts

Tutorials

  • Tutorial 0 - Introduction to Janis
  • Tutorial 1 - Building a Workflow
  • Tutorial 2 - Wrapping a new tool
  • Tutorial 3 - Naming and organising outputs
  • Adding a tool to a toolbox
  • Running your workflow
  • Containerising a tool

Shed / Toolbox

  • Pipelines
  • Tools
  • Data Types
  • Templates
  • List of operators
  • Janis Shed and Toolboxes

API documentation

  • Framework Documentation
  • Workflow
  • Command Tool
  • Python Tool
  • Janis Prepare
  • Expressions
  • Scattering
  • Secondary / Accessory Files
  • Unit Test Framework

Guides

  • Configuring Janis Assistant
  • Configuring resources (CPU / Memory)
  • Call Caching
  • Common Workflow Language
  • Workflow Description Language
  • Collecting tool outputs
  • Configuring Janis for HPCs
  • Engine support
  • Updating Janis
  • Frequently asked questions
  • Common errors
  • Parsing CWL

Development

  • Development
  • Contributing
  • Testing
  • Releasing Janis
Janis
  • Docs »
  • Variant Callers
  • Edit on GitHub

Variant CallersΒΆ

Automatically generated index page for Variant Callers:

GATK4 Germline Variant Caller GATK4_GermlineVariantCaller

(2 versions) v4.1.3.0


GATK4 Somatic Variant Caller GATK4_SomaticVariantCaller

(2 versions) v4.1.3.0


GATK4 Somatic Variant Caller for Tumour Only Samples with Targeted BED GATK4_SomaticVariantCallerTumorOnlyTargeted

(1 versions) v0.1.1


Strelka Germline Variant Caller strelkaGermlineVariantCaller

(1 versions) v0.1.1


Strelka Somatic Variant Caller strelkaSomaticVariantCaller

(1 versions) v0.1.1


Vardict Germline Variant Caller vardictGermlineVariantCaller

(1 versions) v0.1.1


Vardict Somatic Variant Caller vardictSomaticVariantCaller

(1 versions) v0.1.0



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