10x to cloupe
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3.8 years ago
firestar ★ 1.6k

I have my data as "10x" format.

barcodes.tsv
genes.tsv
matrix.mtx

How can I convert this to .cloupe format to view in the 10x loupe browser?

single-cell-transcriptomics 10x • 4.8k views
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The .cloupe file contains additional information that is not available in those three files, so it would not be possible to convert them.

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Anyone knows if something has happened here and made it possible somehow?

I would like to exclude features that are present in < 3 cells, this is possible in Seurat but not in Loupe browser. Does anyone know how to or if it is possible?

best Jonas

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This was not an answer and should not have been added as one. I've moved it to a comment - please be more careful in the future.

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3.8 years ago

I asked 10x once...you can't. You need to run cellranger on the fastqs to make a loupe file.

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6 months ago
firestar ★ 1.6k

Finally, it's here: loupeR.

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