Metadata-Version: 2.1
Name: proteogenomics
Version: 0.1.0
Summary: A CLI tool for proteogenomics analysis
Home-page: https://github.com/sethuakasanji/proteogenomics-cli
Author: Sethupathy Selvaraj, Arunachalam A
Author-email: masssanjay85@gmail.com
License: UNKNOWN
Platform: UNKNOWN
Classifier: Programming Language :: Python :: 3
Classifier: License :: OSI Approved :: MIT License
Classifier: Operating System :: OS Independent
Requires-Python: >=3.6
Description-Content-Type: text/markdown
Requires-Dist: matplotlib
Requires-Dist: numpy
Requires-Dist: os
Requires-Dist: pandas
Requires-Dist: plotly
Requires-Dist: re
Requires-Dist: seaborn
Requires-Dist: time

Proteogenomics Prototype

A CLI-based tool for integrating proteomics and genomics data for biomarker identification.


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📌 Features

✔ Supports multiple input formats: FASTA, mzML, CSV, TSV, FASTQ, BAM, VCF, JSON, XML.
✔ Automated data parsing, integration, and biomarker identification.
✔ Mutation-based biomarker detection.
✔ Interactive visualization for analysis.
✔ Fully CLI-based and runs on Linux (Ubuntu).


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📥 Installation

To install the tool from GitHub:

git clone https://github.com/sethuakasanji/Proteogenomics-Prototype.git
cd Proteogenomics-Prototype
pip install -r requirements.txt

Or install it as a package (after packaging it):

pip install .


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🚀 Usage

To run the CLI:

proteogenomics --help

🔹 Example Commands:

Input Data Processing:

proteogenomics --proteomics /path/to/proteomics_file  --genomics /path/to/genomics_file

Mutation-Based Biomarker Detection:

proteogenomics --mutation-detection

View Available Commands:

proteogenomics --help



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🛠 Configuration

Ensure Python 3.8+ is installed.

Works on Linux (Ubuntu).



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📖 Contributing

If you’d like to contribute, fork the repository and create a pull request!


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📞 Contact : +91 6383824543
Email : masssanjay85@gmail.com

For queries or issues, reach out via GitHub Issues.


