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nf-core / differentialabundance

Differential abundance analysis for feature/ observation matrices from platforms such as RNA-seq
https://nf-co.re/differentialabundance
MIT License
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Differential splicing analysis using rMATS #115

Open dshechter opened 1 year ago

dshechter commented 1 year ago

Description of feature

Differential splicing is a frequent consequence observed in RNA-Seq data. rMATS (https://rnaseq-mats.sourceforge.net/) is the most frequently used analysis tool, providing outputs for skipped exons, alternative 5' and 3' splice sites, mutually exclusive exons, and retained introns. Performing this analysis (and maybe some overview plots, like violin plots of the delta "percent spliced in" deltaPSI metric) would be an important new feature. Thanks for working on this great new pipeline.

pinin4fjords commented 1 year ago

Thanks @dshechter - as with all feature requestors I encourage you to make a PR to the modules repository to add the tool. There are development instructions here https://nf-co.re/developers/tutorials/dsl2_modules_tutorial.

With a tool module in place we can then help you integrate it into this workflow.