Hurley

I have the same question. I think this will cause a huge **data leakage problem** in your training, because your validation and test set is created independently for `gene_adj` and...

Thanks for the clarification Yu! I'm also confused of, for the gene-gene edge type, why do you need both `[gene_adj, gene_adj.transpose(copy=True)]` adjacency matrix, and the same for the disease-disease edges?...

Any updates?

So the problem is actually from GEO. When people submitted the files processed by Cellranger __version 2__, they gzip-ed the files. However when Scanpy sees .gz file it recognized the...

so complicated...... but works by installing the intel brew!

I actually have ~60k cells. I found that 1/4 of the outliers were due to being dissolved due to `dissolve_min_metacell_cells`. I think that's because my mean UMI / cell =...

Thanks for the suggestion. Following your thoughts, I've done some testings on a single cell type as mentioned above. The following does **NOT** really make much difference in terms of...