Creating a combined reference from multiple datasets

dmcable / spacexr

Spatial-eXpression-R: Cell type identification (including cell type mixtures) and cell type-specific differential expression for spatial transcriptomics

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Creating a combined reference from multiple datasets #202

Open OdmaaBayar opened 6 months ago

OdmaaBayar commented 6 months ago

Hi,

I have two .h5ad files from different datasets. Is there a way I can either (1) build a reference that combines these two (will I need to do integration etc.) or (2) during spot deconvolution input two references? How can I convert/process these .h5ad files to generate RCTD compatible references? Thank you!

sondvo commented 4 months ago

I had the same question, any updates on this?

sondvo commented 4 months ago

just found this:

https://github.com/dmcable/spacexr/issues/109