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kimpenn / VisCello

Viscello for Visualization of Single Cell Data
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Extracting high-dimensional data for cross-validation #9

Closed msmathcomp closed 1 year ago

msmathcomp commented 2 years ago

How can I extract the c.elegans data that has been used in the computation of the UMAP embedding? After running the cello(...) command, I don't see any objects of the expected size (~86,000) in the R.Data.

qinzhu commented 1 year ago

Hi sorry for the delayed response. You can see an eset object in the session once you run cello(...) and close the window. Alternatively, you can readRDS("inst/app/data/eset.rds") to get the same ExpressionSet object containing all data.