bioinformatics-toolbox

Docker container for bioinformatics tools and pipelines

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Project maintained by ahmedmoustafa Hosted on GitHub Pages — Theme by mattgraham

Bioinformatics Toolbox

bioinformatics-toolbox is a Docker container for common bioinformatics and genomics related tools.

The list of the installed tools and packages can be found here

Installation

Option 1: Pulling from GitHub Registry (Recommended)

The built image can be downloaded as follows:

sudo docker run -it ghcr.io/ahmedmoustafa/bioinformatics-toolbox /bin/bash

Option 2: Building from the Dockerfile

git clone https://github.com/ahmedmoustafa/bioinformatics-toolbox.git

cd bioinformatics-toolbox/

sudo docker build -t bioinformatics-toolbox .

sudo docker run -it bioinformatics-toolbox

Notes

• The size of the image is about 43 GB.
• Pulling the image (option #1) takes about 15 minutes on a Google Cloud machine type e2-standard-2 in zone us-central1-a.
• Building the image (option #2) takes about 210 minutes on a Google Cloud machine type e2-standard-2 in zone us-central1-a.

Citation

If you use bioinformatics-toolbox in your work, please cite 10.5281/zenodo.8103969

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