search

mskcc / NeoAntigen-Pipeline

Pipeline for computing neoantigen qualities from DNA and RNA-Seq data
MIT License
1 stars 0 forks source link

Investigate Neoantigen tools/pipelines #6

Open nikhil opened 4 months ago

nikhil commented 4 months ago

There are many neoantigen tools and pipelines out there.

Let's investigate these tools and consider adding them so ours can be the best!

Add all tools/pipelines of interest to the document here: https://docs.google.com/document/d/11fAqBiD9bKB4pUB79kjiwxL3GzQpzl1852vHlBNRPdU/edit

pintoa1-mskcc commented 3 months ago

https://genomebiology.biomedcentral.com/articles/10.1186/s13059-023-03005-9

For neoantigens from Structural Variants

pintoa1-mskcc commented 3 months ago

I dont know if we have anything on agretopicity (ratio of mutant vs. wild-type peptide binding affinities) but previous tool we used developed by CCS is https://github.com/mskcc/agReto