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longmanz / Mixscale

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Run_wmvRegDE with bpcells #8

Open yxsee opened 2 months ago

yxsee commented 2 months ago

Hi @longmanz,

Great addition to mixscape! I tried to run Run_wmvRegDE with a seurat bpcells object and had the following error:

Error in handle_data_parameter(data, use_assay, on_disk, verbose = verbose) : 
  Cannot handle data of class 'RenameDims'.It must be of type dense matrix object (i.e., a base matrix or DelayedArray), or a container for such a matrix (for example: SummarizedExperiment).
In addition: Warning message:
Different cells and/or features from existing assay PRTB

Is Run_wmvRegDE compatible with bpcells? Thanks!

longmanz commented 1 month ago

Hi @yxsee , Thank you for using our package. Sorry currently Mixscale package does not work with bpcells object. It is a bit difficult to make it compatible with bpcells since most of the functions require in-memory data.