DOieGYuan / gone

Use one command to perform genome-centric metagenomics using state-of-the-art methods

GOne: perform auto-optimizing genome-centric metagenomics with one command

About

This software integrates state-of-the-art tools to conduct genome-centric metagenomics for researchers who are unfamiliar with command line tools or have limited time in learning bioinformatics.

Features

• Easy to use: only one required parameter (the working directory).
• Flexible: seperated modules for customized workflows.
• Free from manual intervention: all tools and parameters are selected automatically to optimize the performance and results.
• One-stop solution: from raw sequences to publishable figures.

Prerequisite

Install Anaconda following the offical document. Or,

wget https://repo.anaconda.com/archive/Anaconda3-2021.05-Linux-x86_64.sh
# The latest version of the installer can be found at https://repo.anaconda.com/archive/
./Anaconda3-*-Linux-x86_64.sh

Then clone a local copy of the current repository

# Git should be installed first. If not, run
sudo apt-get install git
# Clone the repository
git clone https://github.com/DOieGYuan/easyG.git

Installation

Simply run ./install_easyG.sh to automatically install all required tools and databases.
See details about the installtion in our wiki.

Quick start

First, build all prerequisites by simply run build.sh or install all the dependencies manually

source build.sh

Then, run the pipeline

soure EasyGCMeta [myfolder]

Done

Understand the fundamental output

Supplementary functions (modules)

Configure the pipeline

Q&A

Contact us

Please feel free to contact [e-mail]

to be continued ...(First release aim at 2021-08-18)