Repositories list

• dpclust3p

  Public
  Dirichlet Process Clustering Pre-Processing Pipeline

  R

  •

  GNU General Public License v3.0

  •10•0•0•0•Updated Jun 20, 2024Jun 20, 2024

• dpclust

  Public
  Dirichlet Process based methods for subclonal reconstruction of tumours

  R

  •

  GNU Affero General Public License v3.0

  •16•0•0•0•Updated Apr 4, 2024Apr 4, 2024

• battenberg

  Public
  Battenberg R package for subclonal copynumber estimation

  R

  •

  GNU Affero General Public License v3.0

  •50•1•0•0•Updated Dec 12, 2022Dec 12, 2022

• PhylogicNDT

  Public
  HTML

  •

  Other

  •41•0•0•0•Updated Feb 3, 2022Feb 3, 2022

• mutex-tool

  Public
  Java

  •1•1•0•0•Updated Nov 10, 2021Nov 10, 2021

• gdc-dnaseq-cwl

  Public
  CWL for GDC DNASeq workflows

  Common Workflow Language

  •

  Apache License 2.0

  •14•0•0•0•Updated Mar 26, 2021Mar 26, 2021

• mutect2-tool

  Public
  GDC GATK3 MuTect2 docker

  Python

  •

  Apache License 2.0

  •2•0•0•0•Updated Nov 30, 2020Nov 30, 2020

• mc3

  Public
  Python

  •

  Apache License 2.0

  •22•34•3•0•Updated Sep 28, 2020Sep 28, 2020

• pindel-tool

  Public
  Python

  •8•1•0•1•Updated Sep 28, 2020Sep 28, 2020

• radia-tool

  Public
  Python

  •3•1•0•0•Updated Sep 28, 2020Sep 28, 2020

• samtools-pileup-tool

  Public
  Python

  •6•1•0•0•Updated Sep 28, 2020Sep 28, 2020

• somaticsniper-tool

  Public
  Python

  •6•1•0•1•Updated Sep 28, 2020Sep 28, 2020

• vcf2maf-tools

  Public
  Suite of tools from https://github.com/mskcc/vcf2maf/

  Perl

  •4•3•0•0•Updated Sep 28, 2020Sep 28, 2020

• vcf-tools

  Public
  Python

  •2•2•0•0•Updated Sep 28, 2020Sep 28, 2020

• mutect2-cwl

  Public
  CWL for GDC GATK3 MuTect2

  Common Workflow Language

  •

  Apache License 2.0

  •3•0•0•0•Updated Jul 23, 2020Jul 23, 2020

• muse-tool

  Public
  Python

  •7•1•3•1•Updated Sep 23, 2019Sep 23, 2019

• fpfilter-tool

  Public
  Perl

  •21•1•0•0•Updated Nov 5, 2018Nov 5, 2018

• indelocator-tool

  Public
  Shell

  •2•3•0•0•Updated Nov 5, 2018Nov 5, 2018

• markfiles-tool

  Public
  Python

  •1•1•0•0•Updated Nov 5, 2018Nov 5, 2018

• mutect-tool

  Public
  Python

  •6•2•0•1•Updated Nov 5, 2018Nov 5, 2018

• varscan-tool

  Public
  Python

  •5•0•0•0•Updated Nov 5, 2018Nov 5, 2018

• tcgavcf-tool

  Public
  Python

  •7•1•0•0•Updated Nov 5, 2018Nov 5, 2018

• pfda2dockstore

  Public
  Export precisionFDA apps to Dockstore

  Python

  •5•2•0•0•Updated Jun 25, 2018Jun 25, 2018

• mc3-analysis

  Public
  Jupyter Notebook

  •1•1•0•0•Updated Mar 20, 2018Mar 20, 2018

• samtools-tool

  Public
  2•1•0•0•Updated Mar 19, 2018Mar 19, 2018

• picard-tool

  Public
  2•0•0•0•Updated Mar 2, 2018Mar 2, 2018

• gatk4-tool

  Public
  1•1•0•0•Updated Feb 9, 2018Feb 9, 2018

• nci-download-tool

  Public
  Common Workflow Language

  •1•0•0•0•Updated Feb 8, 2018Feb 8, 2018

• KRCGTK

  Public
  KRC Genomics Toolkit

  Java

  •3•1•0•0•Updated Dec 27, 2017Dec 27, 2017

• variant-effect-predictor-tool

  Public
  WDL

  •2•2•1•0•Updated Oct 17, 2017Oct 17, 2017