OpenTofu lets you declaratively manage your cloud infrastructure.

📐 Jekyll theme for building a personal site, blog, project documentation, or portfolio.

Official code repository for GATK versions 4 and up

Aggregate results from bioinformatics analyses across many samples into a single report.

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

Specification for the Workflow Description Language (WDL).

Bioinformatics containers

Near-optimal RNA-Seq quantification

Amazon Simple Storage Service (S3) API Client

A curated collection of Nextflow implementation patterns

Paws, a package for Amazon Web Services in R

Workflow Description Language developer tools & local runner

A centralized location for storing curated data from cBioPortal

a web application to apply/develop analysis tools for Molecular and Clinical data

Create timecourse "fish plots" that show changes in the clonal architecture of tumors

Statistics course for JHU Genomic Data Science Sequence

Workflows for processing high-throughput sequencing data for variant discovery with GATK4 and related tools

Genomics Workflows on AWS

Microsoft Genomics implementation of the Broad Institute's Cromwell workflow engine on Azure

R utilities for interacting with REDCap

Educational materials for learning WDL

Open workflow definitions for genomic analysis from MGI at WUSM.

Deprecated

Analysis of subclonal copy number alterations (CNA) and loss of heterozygosity (LOH) in cancer

Somatic and germline variant caller for amplicon data. Recommended caller for tumor-only workflows.

A collection of reusable WDL tasks. Category:Other

Ontology for consent codes and data use requirements

workbench identity and access management

SciWiki: Collective KnowledgeBase for Scientific Data and Use