MicroCAT

Microbial Information from Cell Resolution Omics Computational Analysis Toolbox

Introduction

MicroCAT is a comprehensive computational toolbox designed specifically for microbiome data analysis, capable of extracting microbial information at cellular resolution. This toolbox integrates multiple analytical methods to help researchers process and interpret microbial data more efficiently.

Introduction
Installation
Documentation
Citation
Contact
Community Contributions

📦 Installation

MicroCAT runs on Python 3.8 and above. We provide several installation methods:

Conda Installation (Recommended)

conda create -n MICROCAT -c bioconda microcat

If you don't have conda in your environment, we recommend installing it first. See the official conda documentation for installation instructions.

Pip Installation

Use pip to quickly install microcat from PyPI:

pip install microcat

Then install the software required to run microcat, or use the '--use-conda' parameter during execution to automatically build the runtime environment (see microcat's official documentation).

Docker Image

Docker image is still under construction, please be patient.

📄 Documentation

For detailed usage methods and parameter descriptions, please refer to microcat's official documentation.

The official documentation includes:

Detailed installation guide
Input data format requirements
Analysis module descriptions
Parameter details
Results interpretation
Frequently asked questions
Case tutorials

A Chinese version of this documentation is available at README_CN.md.

📄 Citation

If you use MicroCAT in your research, please cite our paper (forthcoming).

@article{microcat,
  title={MicroCAT: Microbial Information from Cell Resolution Omics Computational Analysis Toolbox},
  author={},
  journal={},
  year={2025}
}

📧 Contact

If you have any questions, please feel free to contact us.

Email: changxingsu42@gmail.com or 12231359@mail.sustech.edu.cn 😃

💪 Community Contributions

We welcome your participation in the development of MicroCAT! You can contribute in the following ways:

Report issues and make suggestions
Submit code improvements
Improve documentation
Share your user experience

For specific contribution methods, please refer to microcat's official documentation.

Thank you to all contributors for your support and help!

Release files for microcat 0.3.6

For a detailed explanation of source distributions (sdists) and built distributions (wheels), please see the package formats documentation.

Source distribution (sdist)

Source distribution for microcat 0.3.6
File	Size	Uploaded
microcat-0.3.6.tar.gz	123.2 kB	May 13, 2025	Details

Release files / microcat-0.3.6.tar.gz

Download URL	microcat-0.3.6.tar.gz
Size	123.2 kB
Tags	Source
SHA-256 checksum How to use checksums	`ac1d905d5802f39e0680af706716e1b793d3a25dc56adc2c796be2d4d8ccc99e`
BLAKE2b-256 checksum How to use checksums	`051edef660b33dfe163827769fa2bdf1423148dab9fab6fe43fafe6931047252`
Upload date	May 13, 2025
Uploaded using Trusted Publishing? What is trusted publishing?	No
Uploaded via	`twine/6.1.0 CPython/3.9.15`