- Update HPCDME setup guide: comment out proxy settings by default, add thread count options, update preferred Java version to 23.0.2, and add release branch checkout step. (@kopardev)
- New guide: How to release new versions of pipelines & tools. (#72, @kelly-sovacool)
- New slides for talk: Reproducible AI Practices for Bioinformatics. (#77, @kelly-sovacool)
- New guide: AI Training for the CCR Genetics Branch. (#83, @vinegang, @epehrsson)
- Fix minor typos. (#68, @kelly-sovacool)
- Update instructions for requesting a Copilot license. (#79, @kelly-sovacool)
- New guide: Publishing Shiny apps to NCI's Posit Connect servers (#53, @escauley)
- Update the Zenodo guide with current CCBR practices (#55, @kelly-sovacool)
- Create an overview of authentication with GitHub, a guide on using SSH keys with GitHub, and how to use fine-grained tokens. (#61, @kelly-sovacool)
The website is now rendered with Quarto (#24, @kelly-sovacool)
- LucidChart (#16, #22, @kopardev)
- Conda/mamba
- Conda to mamba migration guide (#37, #38, #39, @kopardev)
- How to use CCBR mamba installation & environments on Biowulf (#41, @kelly-sovacool)
- Docker & Singularity
- How to build containers interactively with Google Cloud Shell (@kelly-sovacool)
- How to use containers with Singularity on Biowulf (@kelly-sovacool)
- GitHub Actions demo (@kelly-sovacool)
- Resources from Code Club presentations (@kelly-sovacool)
- Generative AI:
- GitHub Copilot CLI (#45, @kopardev)
- GitHub Copilot in VS Code (#47, @kelly-sovacool)
- Standardized documentation structure and navigation
- Minor content and formatting updates across guides
- First draft of datashare on Helix doc by @escauley in #1
- First draft for Conda R package doc by @escauley in #2
- updates by @kopardev in #3
- Add checklist of required github helper files by @kelly-sovacool in #7
- feat: parkit how tos with HPCDME by @kopardev in #9
- docs: clarify $USER in HPCDME properties by @kelly-sovacool in #8
- docs: Added info for setting Conda channels by @escauley in #13
- improve HPCDME instructions by @kelly-sovacool in #12
- chore(ci): address codeql alerts by @kelly-sovacool in #15