Repositories list

• app-library

  Public
  Jupyter Notebook

  •1•0•4•0•Updated Feb 23, 2024Feb 23, 2024

• rscript-runner

  Public
  0•0•0•0•Updated Jan 25, 2024Jan 25, 2024

• ABC-Enhancer-Gene-Prediction

  Public
  Cell type specific enhancer-gene predictions using ABC model (Fulco, Nasser et al, Nature Genetics 2019)

  Python

  •

  MIT License

  •61•0•0•0•Updated May 27, 2023May 27, 2023

• MPRAsnakeflow

  Public
  new implementation of MPRAsnakeflow fork of MPRAflow

  Python

  •

  MIT License

  •5•0•0•0•Updated May 22, 2023May 22, 2023

• snakemake-wrappers

  Public
  This is the development home of the Snakemake wrapper repository, see

  CAP CDS

  •186•0•0•0•Updated May 19, 2023May 19, 2023

• grape

  Public
  genomic relatedness detection pipeline

  Python

  •

  GNU General Public License v3.0

  •6•0•0•0•Updated May 15, 2023May 15, 2023

• .github

  Public
  0•0•0•0•Updated Apr 29, 2023Apr 29, 2023

• bio-cwl-tools

  Public
  CWL CommandLineTool descriptions for biology/life-sciences related applications

  Common Workflow Language

  •

  Apache License 2.0

  •37•0•0•0•Updated Apr 27, 2023Apr 27, 2023

• containers

  Public
  Bioinformatics containers

  Dockerfile

  •

  Apache License 2.0

  •249•0•0•0•Updated Apr 27, 2023Apr 27, 2023

• cwl_user_guide

  Public
  The CWL v1.0 - v1.2 user guide

  Common Workflow Language

  •

  Other

  •67•0•0•0•Updated Apr 26, 2023Apr 26, 2023

• cwltool

  Public
  Common Workflow Language reference implementation

  Python

  •

  Apache License 2.0

  •231•0•0•0•Updated Apr 25, 2023Apr 25, 2023

• nhlbi-biodata-catalyst-powered-by-seven-bridges

  Public
  0•0•0•0•Updated Apr 25, 2023Apr 25, 2023

• bdcatalyst-demo

  Public
  Common Workflow Language

  •1•0•0•0•Updated Jan 17, 2023Jan 17, 2023

• fragpipe-proteomics-pipeline-tutorial

  Public
  CWL descriptions for FragPipe Proteomics Pipline

  proteomicsquantificationproteome+ 3fragpipefragpipe-proteomics-pipelinetmt-integrator

  Common Workflow Language

  •1•0•0•0•Updated Apr 5, 2022Apr 5, 2022

• rna-seq-pilot

  Public
  0•0•0•0•Updated Dec 2, 2021Dec 2, 2021

• cancer-multiomics-workflow

  Public
  Common Workflow Language

  •0•0•3•0•Updated Nov 5, 2021Nov 5, 2021

• predixcan_tools

  Public
  Common Workflow Language

  •2•0•0•0•Updated Aug 30, 2021Aug 30, 2021

• cwl-templates

  Public
  Templates used as starting points for cwl dev

  0•0•0•0•Updated Aug 26, 2021Aug 26, 2021

• ancestral-maf-admixed-population

  Public
  Common Workflow Language

  •1•0•0•0•Updated Jul 23, 2021Jul 23, 2021

• ICI

  Public
  Instance Specific Causal Inference

  Common Workflow Language

  •0•0•2•0•Updated Jul 19, 2021Jul 19, 2021

• mitochondria-pipeline

  Public
  mitochondria-pipeline

  Common Workflow Language

  •0•1•1•0•Updated Jul 14, 2021Jul 14, 2021

• dbGAP-downloader

  Public
  Common Workflow Language

  •1•0•0•0•Updated Jul 8, 2021Jul 8, 2021

• ccwl

  Public
  Concise Common Workflow Language

  Scheme

  •

  GNU General Public License v3.0

  •2•0•0•0•Updated Jul 6, 2021Jul 6, 2021

• gatk-best-practices

  Public
  GATK Best Practice Workflows

  Common Workflow Language

  •0•0•0•0•Updated May 27, 2021May 27, 2021

• STRetchPipeline-wdl

  Public
  Detecting Short Tandem Repeat Expansion on Terra Platform

  WDL

  •1•0•0•0•Updated May 27, 2021May 27, 2021

• multiomic-analysis-mogsa

  Public
  CWL wrapper for MOGSA workflows

  Common Workflow Language

  •0•0•1•0•Updated May 21, 2021May 21, 2021

• somatic_mutation_analysis

  Public
  A basic maftools workflow in CWL

  Common Workflow Language

  •0•0•0•0•Updated Jan 25, 2021Jan 25, 2021