new module: UniverSC

[TomKellyGenetics]

Is there an existing module for this?

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Is there an open PR for this?

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Are you going to work on this?

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[TomKellyGenetics]

As discussed here: https://github.com/nf-core/demultiplex/issues/14 https://github.com/nf-core/scrnaseq/issues/31#issuecomment-655556492

Part of this milestone https://github.com/nf-core/demultiplex/milestone/2

I note there is an existing module submissed by @Emiller88 (https://github.com/nf-core/modules/pull/979) for Cell Ranger with similar functionality. This should serve as a suitable template. UniverSC (which I co-maintain with @kbattenb) implements similar functionality to cellranger count.

See our software releases and biorXiv preprint for details on expanded functionality compared to Cell Ranger. We provide a fully-open source Docker container. This tool is under peer-review, currently on a 2nd round of revisions so we expect it to be published in the near future.

https://github.com/minoda-lab/universc https://hub.docker.com/r/tomkellygenetics/universc https://www.biorxiv.org/content/10.1101/2021.01.19.427209v1

[TomKellyGenetics]

This tool has now been accepted at a peer-reviewed journal. We have also developed a graphical user application during revisions: https://genomec.gsc.riken.jp/gerg/UniverSC/

I prepared a module from the templates and updated the PR here: https://github.com/nf-core/modules/issues/1644 https://github.com/nf-core/modules/pull/1706

This PR is a work in progress (needs tests) but is configured and documented so I will share it for feedback.