Best way to check the registry for modules that run a specific data processing command-line program

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Hi!

Thanks for the great training materials!

What’s the best way to check the registry for modules that run a specific data processing command-line program?

For reference, I am interested in this one:

Here also is a slurm script that uses genomeCoverage to make scaled RNA-Seq coverage graphs: Bitbucket

I’ve been using it to visualize and sanity-check differential expression results, for example the direction of the change in a comparison.

Thanks a lot!

Ann

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Hi Ann,

Glad that the training materials were useful! You should be able to simply search for the module that you’d like, eg. for “deeptools bamcoverage”. The top hit is the following module:

Also as for now most modules come from nf-core, you can also just search the nf-core website (https://nf-co.re/modules/) or even the nf-core/modules GitHub repository directly… You’ll see the same module available in those results:

You’ll see in the module main.nf that the script executed is very similar to the slurm script you linked to:

Hope that helps!

Phil