Bioinformatics/en: Difference between revisions
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You can sort on <i>Type</i>, where bioinformatics software is categorized as <i>bio</i>. | You can sort on <i>Type</i>, where bioinformatics software is categorized as <i>bio</i>. | ||
Some bioinformatics software is available as [[Python]] packages, which do not appear on the above | Some bioinformatics software is available as [[Python]] packages, which do not appear on the list mentioned above. | ||
See [[Available Python wheels]] for a list of Python <i>wheels</i> customized for our clusters. | See [[Available Python wheels]] for a list of Python <i>wheels</i> customized for our clusters. | ||
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=Container repository= | =Container repository= | ||
The Bioinformatics National Team maintains a repository of Apptainer (formerly Singularity) containers which provide common workflows and those workflows requiring preservation. | The Bioinformatics National Team maintains a repository of Apptainer (formerly Singularity) containers which provide common workflows and those workflows requiring preservation. Learn more at [[Biorepo Containers]]. | ||
Revision as of 20:19, 6 June 2023
This is not a complete article: This is a draft, a work in progress that is intended to be published into an article, which may or may not be ready for inclusion in the main wiki. It should not necessarily be considered factual or authoritative.
Software
See Available software for a list of bioinformatics applications on our systems. You can sort on Type, where bioinformatics software is categorized as bio.
Some bioinformatics software is available as Python packages, which do not appear on the list mentioned above. See Available Python wheels for a list of Python wheels customized for our clusters.
Data
Some genome databases are available on our clusters, in /cvmfs/ref.mugqic/genomes.
Examine that directory and its subdirectories, e.g. with
[name@server ~]$ ls /cvmfs/ref.mugqic/genomes
or
[name@server ~]$ ls /cvmfs/ref.mugqic/genomes/species
Container repository
The Bioinformatics National Team maintains a repository of Apptainer (formerly Singularity) containers which provide common workflows and those workflows requiring preservation. Learn more at Biorepo Containers.