Bioinformatics Docker Images Project

Phenotypic Evolution Group - IBMC/i3S

pegi3s

About this page

This website contains information about the Docker images maintained by the Phenotypic Evolution Group (pegi3s) at the Instituto de Biologia Molecular e Celular (IBMC) / Instituto de Investigação e Inovação em Saúde da Universidade do Porto (i3S). All images are available through our Docker Hub repository.

In addition, this repository also contains tutorials to serve as guidance on the usage of existing Docker images (e.g. Trinity for RNA-Seq).

Install Docker

In order to use the Docker images maintained by pegi3s, users need to install Docker first.

Linux

To install Docker in Linux, please follow the steps provided here (additional information can be found here).

Windows

To install Docker in Windows, please download the official installer Docker for Windows Installer.exe. If your system does not meet the requirements to run Docker for Windows (available here), please install Docker Toolbox instead.

VirtualBox

As an alternative and for practical purposes, we provide an Ubuntu 18.04 LTS (Linux) virtual image with 11.8 GB, with Docker and Portainer already installed. Please note that this virtual image is limited to 100 GB. In order to run it, first download VirtualBox here. After installing VirtualBox, users just need to import the OVA file here provided. To import an existing virtual machine into VirtualBox, please follow the steps described here.The administrator's user and password is pegi3s. The username and password for Portainer is pegi3sdocker.

Images

List of available bioinformatic images:

Additional images:

Final Remarks

Please note that the original software licenses still apply.

If there is not a Dockerfile tab on an image repository just add "dockerfile" to the end of the Docker image URL.

sudo su (administrator privileges) is required to run any image. As an alternative please follow the steps described here to manage Docker as a non-root user.

Get in Touch

If you are interested in our project or would like to contribute with suggestions, you may contact us through pegi3sdocker@gmail.com.

Dissemination

P. Ferreira; H. López-Fernández; P. Duque; Cristina P. Vieira; F. Fdez-Riverola; Miguel Reboiro-Jato; J. Vieira (2019) Bioinformatics Docker Images. Bioinformatics Open Days: BOD 2019. Braga, Portugal. 21 - February DOI