Simcha_Ubo comments

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                                            Simcha_Ubo

import .h5ad or .loom formats

①Metacell could read 10x files by [mcell_import_scmat_10x](https://tanaylab.github.io/metacell/reference/mcell_import_scmat_10x.html), So if this h5ad file begins with 10x files, which can also be found, things will go easily. ②Alternatively, metacell could read tsv...

How to get the actual raw cells behind a metacell?

> Hi @chansigit and @JulieBaker1, > > The cell to metacell associations are available at the `@mc` slot of the `tgMCCov` object as a named list where names are cell...

Question: Assign a metacell

@annrosebright Hi, Is it possible to add lineage barcodes into gene expression matrix, and to make it be part of highly variable genes list? So that dimension reduction process could...

Issue about plot stackedviolin.

Is it useful to change parameter including 'standard_scale' or norm?

Issue about plot stackedviolin.

Got it, many thanks!

rank_genes_groups method='logreg' causes error with `sc.get.rank_genes_groups_df`

The same issue

rank_genes_groups method='logreg' causes error with `sc.get.rank_genes_groups_df`

Additionally, I tried to use `sc.get.rank_genes_groups_df` in 3 different version of scanpy. And this issue happened in 1.8.2, 1.9.1 but not **1.6.1**.

Error: Missing required datasets 'levels' and 'values'

> Worked around this with @rockdeme's suggestion. Just use anndata, you'll have to get reticulate and other dependencies but it's worth it. > > Example: > > ```r > library("Seurat")...

Error when evaluating R code in an R magic should raise an exception.

Hi, I got the similar issue as followed. `get_ipython().run_cell_magic(u'R', u'-o x', u'x

Error when evaluating R code in an R magic should raise an exception.

Importantly, this issue is possible to be associated with `Cairo` package because I also got error about it at the same time in notebook. See below: ![image](https://github.com/rpy2/rpy2/assets/69028068/5c46c991-9d9f-405b-942c-d106d55b4101)