Welcome to WILDS

The Open Source Software Office at Fred Hutch

Our Mission

Open source software has allowed the biomedical data science community to flourish. Therefore to encourage open science practices and to cultivate the development of open source software at Fred Hutch, the Data Science Lab (DaSL) created WILDS, the open source software office of the Fred Hutch Cancer Center. WILDS stands for Workflows Integrating Large Data and Software, which highlights our focus on people in their day-to-day scientific work. The mission of WILDS includes the following:

  • Engage with the Cancer Consortium community about how they can adopt open science practices into their own workflows.
  • Educate our community about the critical role that open source software plays in biomedical data science practice.
  • Support open source software developers across the Cancer Consortium.
  • Elevate the quality of open-source software being developed at Fred Hutch.
  • Empower new open-source developers by evangelizing best practices and catalyzing community around the open-source software development process.
  • Connect developers, researchers, and providers to opportunities to share, academically publish, and publicize their software.
  • Collaborate within the Fred Hutch community to build the next generation of open-source software tools.

Our Contribution

To support our mission, WILDS is actively engaged in the following activities:

  • We maintain, distribute, and publish open source scientific software, mostly implemented in the Python and R ecosystems.
  • We maintain and distribute open source scientific workflows implemented in WDL or Nextflow.
  • We develop research compendia to demonstrate common data analyses and how they can best be organized and shared.
  • We package and develop Docker recipes and Dockerfiles so that researchers can run pipelines in consistent computing environments.
  • We create and maintain documentation about how to use and contribute to WILDS resources.
  • We co-sponsor and create materials for DaSL’s Community Studios.

All of these open source resources are designed for researchers to either use off-the-shelf or as tools and templates that they can adapt into their own work. Click on any of the boxes below to explore the resources that WILDS has to offer.

Code

R Packages
Python Packages
Docker Recipes
Research Compendia
WDL Workflows
Nextflow Workflows


Get Involved

Read - WILDS Contributor Guide

Contribute - See our packages page