griffithlab / griffithlab/pVACtools
Investigate TLStab (pMHC stability predictor) , TLImm (immunogenicity predictor)
A pull request for this has already been merged.
- #1377 by @susannasiebert — merged
- Dominant language
- Python
- Stars
- 188
- Forks
- 81
- Avg merge
- 9d 17h
- Merged PRs (30d)
- 6
Description
investigate additional pMHC stability and immunogenicity predictors
Paper: https://www.sciencedirect.com/science/article/pii/S2667119023000101
Tool: https://github.com/KavrakiLab/TL-MHC
optional, in the same tool set: TLBind (binding affinity/eluted ligand predictor)
Contributor guide
No contributing guide indexed for this repository
First steps
- Read the whole issue, then the project's contributing guide.
- Comment on the issue to say you are picking it up — it saves two people doing the same work.
- Fork the repository and make your change on a branch.
- Open a pull request that references the issue number.
Research direction
Start by reading the linked paper and the TL-MHC repository, focusing on the TLStab and TLImm predictors; TLBind is optional. Review how pVACtools handles predictor integrations, then define the required scope and validation for adding these tools. Done should include a clear investigation result and an agreed implementation plan.
Written by the indexing model from the issue text.
Assessment
- Tech stack
- python
- Domain
- machine-learning
- Issue type
- Feature
- Difficulty
- 5/5
- Estimated time
- Over a week
- Activity status
- Stale
- Clarity
- Needs clarification
- Newbie friendliness
- 25/100