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Common Workflow Language

CWL documents describe workflows made of command line data analysis tools in a portable, reproducible, and reusable fashion.

Here are 159 public repositories matching this topic...

common-workflow-language / common-workflow-language

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Repository for the CWL standards. Use https://cwl.discourse.group/ for support 😊

science workflow containers common-workflow-language cwl workflows commonwl sciworkflows

Updated Jul 3, 2020
Python

DataBiosphere / toil

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A scalable, efficient, cross-platform (Linux/macOS) and easy-to-use workflow engine in pure Python.

python aws workflow pipeline slurm mesos common-workflow-language gridengine cwl

Updated Jul 18, 2020
Python

cromwell

broadinstitute / cromwell

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Scientific workflow engine designed for simplicity & scalability. Trivially transition between one off use cases to massive scale production environments

docker application workflow cloud bioinformatics scala executor hpc containers wdl common-workflow-language ga4gh cwl workflow-description-language workflow-execution

Updated Jul 17, 2020
Scala

arvados / arvados

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An open source platform for managing and analyzing biomedical big data

ruby python go docker aws workflow cloud bioinformatics genomics azure workflow-engine cluster bigdata gcp cwl arvados

Updated Jul 17, 2020
Go

cwltool

common-workflow-language / cwltool

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Common Workflow Language reference implementation

science containers common-workflow-language cwl workflows

Updated Jul 17, 2020
Python

rabix / composer

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Visual and code editor for Common Workflow Language

editor ide common-workflow-language cwl

Updated Jul 17, 2020
TypeScript

common-workflow-library / legacy

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Deprecated

cwl

Updated Aug 12, 2019
Common Workflow Language

Barski-lab / cwl-airflow

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Python package to extend Airflow functionality with CWL1.1 support

workflow containers common-workflow-language cwl dag commonwl cwl-airflow cwl-descriptor

Updated Jul 17, 2020
Python

CaPTk

CBICA / CaPTk

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Cancer Imaging Phenomics Toolkit (CaPTk) is a software platform to perform image analysis and predictive modeling tasks. Documentation: https://cbica.github.io/CaPTk/

Updated Jul 17, 2020
C++

dockstore / dockstore

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Our VM/Docker sharing infrastructure and management component

docker workflow bioinformatics nextflow containers wdl cwl dockstore

Updated Jul 17, 2020
Java

rabix / bunny

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[Legacy] Executor for CWL workflows. Executes sbg:draft-2 and CWL 1.0

java docker workflow executor common-workflow-language cwl commonwl

Updated Mar 27, 2019
Common Workflow Language

reanahub / reana

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REANA: Reusable research data analysis platform

kubernetes reproducible-research containers cwl research-data reproducible-workflows reusable-science

Updated Jul 10, 2020
Python

rabix / cwl-svg

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A library for generating an interactive SVG visualization of CWL workflows

visualization svg workflow bioinformatics cwl

Updated Jul 17, 2020
TypeScript

ga4gh / workflow-execution-service-schemas

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The WES API is a standard way to run and manage portable workflows.

workflow wdl ga4gh cwl

Updated Jun 23, 2020
Python

4dn-dcic / tibanna

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Tibanna helps you run your genomic pipelines on Amazon cloud (AWS). It is used by the 4DN DCIC (4D Nucleome Data Coordination and Integration Center) to process data. Tibanna supports CWL/WDL (w/ docker), Snakemake (w/ conda) and custom Docker/shell command.

docker aws bioinformatics snakemake aws-lambda pipelines conda wdl cwl aws-step-function wdl-workflow cwl-workflow snakemake-workflow

Updated Jun 8, 2020
Python

NLeSC / scriptcwl

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Create cwl workflows by writing a simple Python script

python workflow cwl

Updated Apr 29, 2020
Python

benten

rabix / benten

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A language server for Common Workflow Language

editor workflow language-server ide common-workflow-language cwl cwl-documents

Updated Jun 10, 2020
Python

rabix / cwl-ts

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Typescript data model for Common Workflow Language

workflow typescript common-workflow-language cwl

Updated Jul 17, 2020
TypeScript

IBMSpectrumComputing / cwlexec

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A new open source tool to run CWL workflows on LSF

java workflow lsf cwl

Updated Jun 28, 2020
Java

nlppln / nlppln

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NLP pipeline software using common workflow language

nlp workflow text-mining pipeline cwl

Updated Apr 22, 2019
Python

common-workflow-library / bio-cwl-tools

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CWL CommandLineTool descriptions for biology/life-sciences related applications

cwl

Updated Jul 9, 2020
Common Workflow Language

otiai10 / hotsub

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Command line tool to run batch jobs concurrently with ETL framework on AWS or other cloud computing resources

docker aws workflow bioinformatics workflow-engine gcp docker-machine wdl batch-job cwl etl-framework wdl-workflow cwl-workflow

Updated Nov 14, 2018
Go

common-workflow-language / cwlviewer

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A web application to view and share Common Workflow Language workflows

workflow common-workflow-language cwl workflows

Updated Jul 17, 2020
Java

common-workflow-lab / wdl2cwl

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[Experimental] Workflow Definition Language (WDL) to CWL

wdl cwl commonwl wdl-workflow

Updated Jul 2, 2020
Python

ga4gh / tool-registry-service-schemas

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APIs for discovering genomics tools, their metadata and their containers

api workflow tool wdl ga4gh cwl

Updated Apr 6, 2020
Shell

PMCC-BioinformaticsCore / janis

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[Alpha] Janis: an open source tool to machine generate type-safe CWL and WDL workflows

python workflow wdl common-workflow-language cwl workflow-description-language

Updated Jul 17, 2020
Python

Duke-GCB / GGR-cwl

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CWL tools and workflows for GGR

dnase-seq rna-seq chip-seq atac-seq cwl

Updated Jul 8, 2020
Common Workflow Language

otiai10 / yacle

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Yet Another CWL Engine by Golang

bioinformatics common-workflow-language cwl

Updated Mar 19, 2019
Go

otiai10 / cwl.go

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CWL (and input file) parser for Golang, used by github.com/otiai10/yacle

golang bioinformatics common-workflow-language cwl

Updated Mar 19, 2019
Go

stjudecloud / oliver

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An opinionated Cromwell orchestration manager.

workflow bioinformatics genomics hpc next-generation-sequencing bioinformatics-pipeline wdl cwl cromwell wdl-workflow cwl-workflow workflow-execution oliver

Updated Jul 13, 2020
Python

Created by Peter Amstutz, John Chilton, Michael R. Crusoe, Nebojša Tijanić, and the CWL Community

Released January 2015

Organization: common-workflow-language
Website: www.commonwl.org
Wikipedia: Wikipedia

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