imctoolkit anndata export empty data matrix
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mezwick commented
Exporting single-cell data via .to_anndata()
creates AnnData objects where cell_channel
properties are stored in layers. However the main adata.X
data matrix is left empty. This can lead to errors when handling multiple adata export objects from imctoolkit, such as when concatenating multiple adata objects (which returns a shape error).
Might be useful to default load mean intensities into the adata.X?