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AlexsLemonade / alsf-scpca

Management and analysis tools for ALSF Single-cell Pediatric Cancer Atlas data.
BSD 3-Clause "New" or "Revised" License
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Compare to CellRanger #26

Closed jashapiro closed 3 years ago

jashapiro commented 3 years ago

While we have no intention of performing our analysis with CellRanger, it would be nice to have a quick (ha!) comparison of its results to Alevin and Kallisto.

This will likely involve making a Dockerfile for CellRanger, as there is not currently an available dockerfile (licensing). It should be possible to create this dockerfile in the github package repository and keep it private, but I am not sure how this will interact with nextflow. Another possibility might be to pass the binary in with the other data files; this might be simpler for the limited runs we expect.

jashapiro commented 3 years ago

Just a note to add that the bones of this are covered by #31 and #34. The general "comparison" is covered in #35.

jashapiro commented 3 years ago

Closed by #45