Add VarNet somatic variant calling rule #7

New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Jump to bottom

Open

iamh2o wants to merge 3 commits into main from codex/add-snakemake-rule-for-varnet

Contributor

iamh2o commented Aug 18, 2025

Summary

support VarNet tumor-normal variant calling with chromosome chunking
detect tumor-normal pairs from manifest and wire VarNet into workflow
provide configuration stubs for VarNet in local and slurm profiles

Testing

pytest

https://chatgpt.com/codex/tasks/task_e_68a2da687db88331aa0bf1b5332dec31


          Add VarNet somatic variant calling rule

ed9ed59

iamh2o added the codex label

— with

ChatGPT Codex Connector

iamh2o and others added 2 commits

August 21, 2025 06:51


          Use explicit tumor-normal match column

bebfe59

19bfc22

Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment

Labels