Ernesto Paas comments

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                                            Ernesto Paas

Accessing cell type labels

For future reference and considering that the automatic conversion with `scanpy` or `AnnData` is difficult due to deprecations, I leave here a python code snippet for extracting a `pandas==2.1.1` dataframe...

Sankey node_color and node_fill_color options not applied

I just posted a PR with minimal internal code changes to fix this https://github.com/holoviz/holoviews/pull/6678. With this fix, if you define a `Dataset` instead of a dataframe for the `nodes` and...

Call `numba.set_num_threads` when `n_jobs` is specified (e.g. in `scanpy.tl.rank_genes_group`)

Sorry for reviving such an old topic but, aside from wanting to check up on this, I also wanted to offer some advice to anyone that might stumble upon this...

Call `numba.set_num_threads` when `n_jobs` is specified (e.g. in `scanpy.tl.rank_genes_group`)

> Any advances on this? Or maybe a suggestion for another tool? Sorry, I just realized that, nowadays, `scanpy` does use parallelization through `np.aggregate` when calculating marker genes. It is...