Smilenone

How can I calculate the distance between two cell types based on the results of tangram?

3

Hi, thanks for your excellent work which transfers the cell type annotations onto space by a probabilistic mapping. Utlizing this results, can I calculate the distance between two cell types...

InvalidIndexError when running sdm.extract_lr(adata, 'human', min_cell=3)

2

I encountered an error when running sdm.extract_lr(adata, 'human', min_cell=3), following is the detailed issue: ``` sdm.weight_matrix(adata, l=1.2, cutoff=0.2, single_cell=False) # weight_matrix by rbf kernel ----> 3 sdm.extract_lr(adata, 'human', min_cell=3) #...

Which kind of normalization for 10X data is perferred for kBET?

3

Thanks for such a good tool for assessing single-cell RNA-seq batch correction. I have 180k cells across 20 patients and I would like to analyze whether there is batch effect....

Thank you for providing such a good interactive plotting method to visualize the enrichment results. However, I would like to hide/remove the text on the graph nodes, how can I...