Migrate to Universc

[TomKellyGenetics]

Migrate to UniverSC

This reconfigures Cell Ranger calls to use UniverSC instead (as per #14).

At the moment it is hardcoded for 10x Genomics parameters but a variable can be passed to --technology to support additional techniques. Guidance on how the existing pipeline is set up would be helpful to add support for additional single-cell technologies.

This uses an open source version of Cell Ranger, not subject to the 10X Genomics End User License Agreement. Therefore use on other technologies is permitted.

nf-core/demultiplex pull request

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[TomKellyGenetics]

If I understand the documentation correctly, should be possible to pass DataAnalysisType from nextflow to —technology input for UniverSC.

[edmundmiller]

Closing this since it's over a year old. Leaving #14 open though.