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.

CWL on Kubernetes

Bioinformatics workflows developed for and used on the St. Jude Cloud project.

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

Project Manager for NGS data analysis

A set of CWL tools and workflows used by NCBI Computational Biology Branch for NGS data analysis

This repository contains all CWL descriptions of the MGnify pipeline version 5.0.

CReSCENT Portal: https://crescent.cloud | CReSCENT Docs: https://pughlab.github.io/crescent-frontend/

This repository contains CWL descriptions of the various tools which will allow you to build workflows for the annotation of transcripts

Gerber: Generalized Easy Reproducible Bioinformatics Environment wRapper

CWL workflow that facilitate performing a series of structural and phenotype related third party prediction methods starting from either a protein FASTA file or a list of Uniprot IDs. Integrated prediction methods refer to secondary structure, solvent accessibility, disordered regions, PTS modifications (phosphorylation, glycosylation, lipid mod…

This workflow performs annotation on SNV and INDEL VCFs.

A CWL implementation of a modular GATK Variant Calling pipeline

Workflow for GA4GH/DREAM challenge (phase 2)

Infrastructure as a code for reproducible data science pipelines using CWL and Airflow

A list of subworkflows used for MSK-ACCESS data processing.

PLANTOGEN-A, an automated genome assembly pipeline designed to assemble symbiont microorganisms genome from Oxford Nanopore (ONT) data.

Growth Rate Index Calculater wrapped by CWL

Generation Quality Controls Files for MSK-ACCESS