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Hi developers,
Nice method and code/documentation! I was wondering how feasible is to apply ANANSE to single-cell multiomics data (RNA+ATAC):
- For scalability, should I pseudobulk cells by cell…
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Hi, I'm trying to convert mudata to Seurat object. I'm getting following error while using ReadH5MU():
seurat
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**Describe the bug**
Can't save h5mu from Scirpy processed gex+bcr+tcr data if I copy airr into obs (i.e. `tdata.obs = tdata.obs.join(ir.get.airr(tdata, tdata.obsm['airr'].fields))`).
Unlike in #4…
Ngort updated
3 weeks ago
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@gtca
The monospace font you're using doesn't seem to exist on my machine.
I've noticed this with a number of the svgs around muon (which I think I've pinged you about before?)
I think w…
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I'm looking through the code and documentation for the [cisTopicObject](https://pycistopic.readthedocs.io/en/latest/api.html#module-pycisTopic.cistopic_class), and it seems very similar to the concept…
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**User story**
User is a biologist and has a dataset they want to visualize. We should point them directly to an example and the relevant documentation pages.
**Preferred solution**
We should…
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Currently we are stripping the `._data` attribute of the FA model before saving. I think that makes sense, to save memory.
However, when reloading the model, we should be able to re-add data to still…
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### Description of the bug
When running `session_info.show()` when dandelion has been imported raises an error:
```
Cell In[2], line 2
1 #Output session Info
----> 2 session_info.show()…
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**Describe the bug**
when I test the muon pipeline by using data of 6400cells, error happens when run 'mu.pp.neighbors(mdata, key_added='wnn')'' like : *** Error in `python': malloc(): smallbin doub…
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I would like to add a `anndata.merge` function, with similar functionality to `xarray.merge`.
## Example
```python
>>> expr_adata
AnnData object with n_obs × n_vars = 3000 × 15000
layers:…