Closed yolsan closed 5 years ago
Hi Yolanda,
All that SoupX needs to work is a sparse matrix containing counts for each gene from all droplets generated in the experiment (including empty ones) and a vector indicating which of these droplets contain cells. If the dgTMatrix you provide meets these criteria there is no reason it shouldn't work. Have a look at the help for SoupChannel
for details of how to load the data.
Hi, I would like to use SoupX for my dropseq data. Is it possible to just plug the dgTMatrix to estimate Soup?
Best, Yolanda