Page: Bioinformatics Docker Images Project (https://pegi3s.github.io/dockerfiles/)
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gravatar for pegi3sdocker
9 months ago by
pegi3sdocker20
pegi3sdocker20 wrote:

Dear colleagues,

This is to let you know about our Bioinformatics Docker Images Project (https://pegi3s.github.io/dockerfiles/, https://hub.docker.com/u/pegi3s/ ). As similar projects, our aim is to provide ready-to-use Docker images for bioinformatics software commonly used in genomics, transcriptomics, sequence analysis, and philogenetics (e.g. BLAST, FastQC, Clustal Omega, etc.).

We also focus in giving clear instructions on how to use the images and providing appropriate sample cases to test them easily (e.g. https://hub.docker.com/r/pegi3s/alter ). We have also created images for GUI-based software such as ADOPS (https://hub.docker.com/r/pegi3s/adops-gui ), TreeView X (https://hub.docker.com/r/pegi3s/treeviewx ) or SEDA (https://hub.docker.com/r/pegi3s/seda/ ), among others.

If you are interested in our project or would like to contribute with suggestions, you may contact us through pegi3sdocker@gmail.com or by creating an issue at the GitHub repository of the projet (https://github.com/pegi3s/dockerfiles/issues ).

Regards, the pegi3sdocker team.

ADD COMMENTlink modified 9 months ago • written 9 months ago by pegi3sdocker20
2

Is there a reason that the Biocontainers project isn't sufficing for your needs?

ADD REPLYlink written 9 months ago by Devon Ryan93k

The main difference between our project and BioContainers is the fact that we provide detailed and clear information on how to run the Docker images, allowing researchers without a background in informatics to easily use such images. We also provide test cases when appropriate. Users may find also links to the developer's manuals of the scientific software. For those users wishing to use software with a graphical interface in Windows hosts, we provide a VirtualBox image with Docker installed.

ADD REPLYlink written 9 months ago by pegi3sdocker20

Are the images fully compatible with singularity to potentially use them on HPC systems which are typically and conceptually not intended for Docker use?

ADD REPLYlink modified 9 months ago • written 9 months ago by ATpoint26k

Thank you for your comment. So far we had not tested them with singularity, but we plan to do soon because we are aware of the fact that some HPC systems do not allow the use of Docker.

ADD REPLYlink written 9 months ago by pegi3sdocker20
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