Koichi Hashikawa comments

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                                            Koichi Hashikawa

Data integration does not work for few cells when `l2.norm = False`

Same here. When I am performing 2nd round of integrative clustering on targeted cell types where each sample has ~50 cells. I received the same error when running FindIntegrationAnchors: number...

KeyError: 'base' when running `tl.rank_genes_groups`

Same here. adata.uns['log1p']["base"] = None eliminated the error, but the FC seems weird. I compared the FC results with Seurat FindMarker results, which used the same FC calcualtion. For most...

KeyError: 'base' when running `tl.rank_genes_groups`

@LuckyMD requires attentions to several of the threads above from Scanpy team. Thanks!

Installation error: 'mutex' in namespace 'std' does not name a type

Thanks so much for the detailed answer. Previous errors are solved and I think it gets very close, but still have an error an the end. ``` ** testing if...

BuildNicheAssay; best practice for optimal usage

@odunola26 What you are posting here is a separate issue. I have created a new issue for it where you may want to discuss your issue with Seurat folks.

BuildNicheAssay; best practice for optimal usage

@igrabski This issue is not addressed for quite a long time while I think it is important to computationally support the identification of the best number of niches per data....