Multiple Myeloma Risk Classifier

This repository contains a Python script for classifying multiple myeloma patients into ultra-high-risk and low-risk categories based on RNA-seq gene expression data and survival information.

Data Requirements

• Expression data: TSV/CSV with GENE_ID as rows, sample IDs (e.g., MMRF_XXXX_1_BM) as columns. Values are TPM.
• Survival data: CSV with columns public_id (e.g., MMRF_XXXX) and ttcos (survival time in months).

Installation

pip install -r requirements.txt

Usage

python mmrc.py --expression_file path/to/exp.tpm.tsv --survival_file path/to/survival_months.csv --output_dir output/

Output

• Intermediate CSV files and plots in the specified output directory.
• Console output with model performance.

Notes

• This is a simplified classification approach. For real clinical use, consider censoring in survival data and consult domain experts.
• Immunoglobulin genes are fetched via HGNC API and removed.

License

MIT License — see LICENSE for details.

Contributing

Pull requests and suggestions are welcome! Please see CONTRIBUTING.md for guidelines.