mlstclassifier_cd 0.1.1

multi-locus sequence type clade classifier for C.difficile

MLSTclassifier_cd

Table of Contents

• Overview

• Installation

• Usage

• Output

Overview

Enhance your clade prediction process with MLSTclassifier_cd, a powerful machine learning tool that employs K-Nearest Neighbors (KNN) algorithm. Designed specifically for Multi-Locus Sequence Type (MLST) analysis of C.difficile strains, including cryptic variants, this tool streamlines and accelerates clade prediction. MLSTclassifier_cd achieves accuracy of approximately 92% for predictions.

StatQuest methodology was used to build the model (https://www.youtube.com/watch?v=q90UDEgYqeI&t=3327s). Powered by the Scikit-learn library, MLSTclassifier_cd is a good tool to have a first classification of your C.difficile strains including cryptic ones.

GitHub repo: https://github.com/eliottBo/MLSTclassifier_cd

Installation:

Install PyPI package:

pip install mlstclassifier-cd

Usage:

Basic Command:

The query csv file must have the same structure as the example "MLST_file_example.csv".

MLSTclassifier_cd [query csv file path] [output path]

Output:

After running MLSTclassifier_cd, the output file should contain an additional column named "predicted_clade"