griffithlab / griffithlab/pVACtools
Explore incorporation of "Inhibigens" in neoantigen candidate prioritization
Nobody has claimed this yet.
- Dominant language
- Python
- Stars
- 188
- Forks
- 81
- Avg merge
- 9d 17h
- Merged PRs (30d)
- 6
Description
Reference papers that consider the potential that some peptides actual inhibit immune response:
https://www.jimmunol.org/content/204/1_Supplement/91.15 https://journals.aai.org/jimmunol/article-abstract/204/1_Supplement/91.15/7950276?redirectedFrom=fulltext#google_vignette
https://pubmed.ncbi.nlm.nih.gov/33504579/
https://jitc.bmj.com/content/9/Suppl_2/A787
https://aacrjournals.org/cancerdiscovery/article/11/3/696/3096/An-Empirical-Antigen-Selection-Method-Identifies
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 reviewing the four cited papers and compare their treatment of inhibitory peptides with pVACtools' existing neoantigen candidate prioritization. No files, tests, or entry points are named, so first identify the relevant prioritization workflow and define the expected behavior. Done requires an agreed implementation scope and validation criteria for incorporating inhibigens.
Written by the indexing model from the issue text.
Assessment
- Tech stack
- python
- Domain
- bioinformatics
- Issue type
- Feature
- Difficulty
- 5/5
- Estimated time
- Over a week
- Activity status
- Stale
- Clarity
- Needs clarification
- Newbie friendliness
- 25/100