Thymic_NK_development

Project repository — code and configs only. Large/raw/processed data and HPC run outputs live outside this repo at ~/Documents/HPC_data/Thymic_NK_development/ (not version-controlled).

Structure

• scripts/preprocessing/ — data preprocessing scripts
• scripts/analysis/ — downstream analysis scripts
• scripts/hpc_jobs/ — Marvin SLURM job scripts for this project (built from templates in ../HPC_workflows/templates/)
• notebooks/ — exploratory notebooks
• configs/ — small parameter files (YAML/JSON), not data

HPC

See ../HPC_workflows/marvin_hpc_reference.md for cluster access, partitions, and submission conventions. This project's SLURM account: ag_iei_abdullah.

Harvested job outputs land in ~/Documents/HPC_data/Thymic_NK_development/hpc_runs/.

Remote

git remote add origin https://github.com/Eomesodermin/Thymic_NK_development.git