bioinfo_Toolbox

Bioinformatics Analysis Scripts

Welcome to the Bioinformatics Analysis Scripts repository! This repository contains a collection of scripts and tools for performing some bioinformatics analyses on genomic, metagenomic, and transcriptomic data. Whether you're a seasoned bioinformatician or just getting started, this repository is designed to assist you in your data analysis endeavors.

Table of Contents

• Introduction
• Getting Started
• Available Scripts
• Usage
• Contributing
• License

Introduction

In this repository, you will find a set of bioinformatics analysis scripts tailored for different types of biological data. These scripts aim to streamline various analytical tasks, from preprocessing and quality control to advanced data manipulation and visualization.

Getting Started

To begin using these scripts, follow these steps is to clone the repository to your local machine:

git clone https://github.com/your-username/bioinformatics-scripts.git

Install any required dependencies. You can find the dependencies listed in the documentation of each script. Navigate to the relevant directory for the specific analysis you wish to perform. Run the desired script by executing the following command:

python script_name.py
or
bash script_name.sh

Available Scripts

This repository provides a wide range of scripts for diverse bioinformatics analyses, including but not limited to:

* Genomic Analysis
    * Script 1: Description of script 1.
    * Script 2: Description of script 2.

* Metagenomic Analysis
    * Script A: Description of script A.
    * Script B: Description of script B.

* Transcriptomic Analysis
    * Script X: Description of script X.
    * Script Y: Description of script Y.

Usage

Each script comes with its own usage instructions and parameters. Please refer to the documentation within each script's directory for detailed information on how to run and configure the scripts for your specific analysis.

Contributing

Contributions to this repository are welcome! If you'd like to add new scripts, improve existing ones, or suggest enhancements, please follow these steps:

1. Fork the repository to your GitHub account.
2. Create a new branch for your changes:

git checkout -b feature/new-feature

3. Make your changes, and ensure that your code is properly documented.

4. Commit your changes with clear and concise commit messages:

git commit -m "Add: New script for feature XYZ"

5. Push your changes to your forked repository:

git push origin feature/new-feature

Funding

This work was supported by the Plant Health and Environment Department of the French National Research Institute for Agriculture, Food, and the Environment (INRAe), as well as MYCOPHYTO sas. Additionally, financial assistance was provided by the French National Research Agency (Agence Nationale de la Recherche) under grant number ANR-22-PEAE-0011.

Authors

• Carole Belliardo: [email protected]

License

This project is licensed under the MIT License.