Platform

tags: Unique molecular identifier, UMI deduplication, Count matrix, Genome analysis,

Overview

UMIche is a Python-based platform for improving multiplexing and demultiplexing of UMI-tagged sequencing data, which allows researchers to do knowledge discovery.

📔 Documentation

Please check how to use the full functionalities of UMIche in the documentation https://2003100127.github.io/umiche.

🔑 Installation

PyPI

umiche homepage on PyPI

# create a conda environment
conda create --name umiche python=3.11

# activate the conda environment
conda activate umiche

# the latest version
pip install umiche --upgrade

Conda

umiche homepage on Anaconda

# create a conda environment
conda create --name umiche python=3.11

# activate the conda environment
conda activate umiche

# the latest version
conda install jianfeng_sun::umiche

Docker

umiche homepage on Docker

docker pull 2003100127/umiche

Github

umiche homepage on Github

# create a conda environment
conda create --name umiche python=3.11

# activate the conda environment
conda activate umiche

# create a folder
mkdir project

# go to the folder
cd project

# fetch UMIche repository with the latest version
git clone https://github.com/2003100127/umiche.git

# enter this repository
cd umiche

# do the following command
pip install .
# or
python setup.py install

📋 Citation

Please cite our work if you use Tresor in your research.

@article{umiche,
    title = {UMIche: a Python-based platform for improving multiplexing and demultiplexing of UMI-tagged sequencing data},
    author = {Jianfeng Sun},
    url = {https://github.com/2003100127/umiche},
    year = {2024},
}

🏠 Homepage

📍Oxford NDORMS

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