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The questions are as follows:
Problems encountered with low matrix package versions are as follows:
```
Error in isTRUE(r mmu_go_analyzed = analyzeGOSeurat(go_seurat_obj = mmu_go_obj, cell_type_…
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- [x] Additional function parameters / changed functionality / changed defaults?
At the moment when we are plotting data points in e.g., `sc.pl.umap()` with `color='covariate'` we determine the plo…
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Hi,
I am having an issue exporting my h5ad file to spring for visualization. I have been following the [spring export tutorial](https://github.com/theislab/scanpy_usage/tree/master/171111_SPRING_ex…
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Hi I've been trying to install celloracle on a macOS osx-64 conda environment but kept failing due to failing to build gimmemotifs:
```
set build/lib.macosx-12-arm64-cpython-311/gimmemotifs/_version…
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If one runs the Jacobian calculation with sub-sampling enabled such as follows: `dyn.vf.jacobian(adata, regulators=top_pca_genes, effectors=top_pca_genes, sampling="velocity", sample_ncells=2000)`, su…
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Hi,
I encountered an error when running CreateSinglerSeuratObject as following, could you help me look into it?
This raw dataset works for Seurat cluster but not work here.
Thanks a lot.
`
…
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Hi,here is a bug in the funtion named "scanpy.tl.rank_genes_groups". I tried to filter the genes starting with "HLA", then I used "scanpy.tl.rank_genes_groups" to check the marker genes in each group.…
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**Describe the Error**
The function `anndataToGiotto`, even though it runs successfully, throws an error message.
This will happen if I use an alternative `env_name`.
...
**Error Message**
…
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Hi Luke,
Thanks for zellkonverter.
I downloaded one of the h5ad objects from [here](https://figshare.com/ndownloader/files/23872460) and ran the following code in jupyter notebook.
```
# Mai…
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Terminal Output:-
.
.
.
computing neighbors
computing neighbors
computing neighbors
finished: added to `.uns['neighbors']`
'distances', distances for each pair of neighbors
'con…