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prabhakarlab / Banksy

BANKSY: spatial clustering
https://prabhakarlab.github.io/Banksy
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RunBanksy function issue #34

Closed mvereten closed 5 months ago

mvereten commented 5 months ago

Dear Banksy team,

I've tried running the code as in a vignette provided, and I get an error related to 'compute.banksyMatrices':

ss.hippo <- RunBanksy(ss.hippo, lambda = 0.2, verbose=TRUE, assay = 'Spatial', slot = 'data', features = 'variable', k_geom = 15)

Fetching data from slot data from assay Spatial Subsetting by features Computing neighbor matrix Error in RunBanksy(ss.hippo, lambda = 0.2, verbose = TRUE, assay = "Spatial", : object 'compute.banksyMatrices' not found

Is this something that is very easy to fix, is there some extra data to load or a function to run to make this object?

Thanks, Maria

jleechung commented 5 months ago

Hi Maria, this should be easily fixable. Can you refer to the discussion here: https://github.com/prabhakarlab/Banksy/issues/26#issuecomment-2051933638? Restarting your R session, then uninstalling Banksy / SeuratWrappers and re-installing should hopefully work.

mvereten commented 5 months ago

Thank you very much, I've fixed it by reinstalling etc.