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davismcc / archive-scater

An archived version of the scater repository, see https://github.com/davismcc/scater for the active version.
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Reading mtx (matrix market) files? #109

Closed vals closed 7 years ago

vals commented 7 years ago

Hi,

I think it would be helpful with a file reader which reads the output from e.g. 10X Genomics Cell Ranger. This is a .mtx matrix market file (sparse matrix encoding), and two TSV files: One with gene information, and one with sample barcodes.

Given the popularity of 10X, it'll probably be useful, and a lot of people are confused about how to get the .mtx files in to R.

LTLA commented 7 years ago

We already have such a function in read10XResults; see R/10ximport-wrapper.R.

vals commented 7 years ago

Oh! Bah, the person I spoke said she checked! Never mind then.