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## Context
This is split out from #2822. #2822 had a couple questions: one was answered there conclusivel, and the other turns out to be multi-faceted. This issue tracks the second.
Also note nu…
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Hi,
This is a visium_HD object from spatialdata documentation, there are three tables in this object:
```
SpatialData object with:
├── Images
│ ├── 'Visium_HD_Mouse_Small_Intestine_cytassist_…
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I'm opening this issue to track and discuss how our data structure differs from xarray. Ideally I would close it when AnnData could easily be implemented via xarray.
*Some previous discussion: #308…
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If adata.n_obs < 4096 and umap version >= 0.4 and if `metric` is a distance that is not supported by scikit-learn (like ll_dirichlet or hellinger), we get a ValueError:
Code for reproducing with UM…
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Hi there,
I was trying to write my adata with `write_h5ad` which has my loom objects merged with my Seurat object in Python so that I can then convert it to Seurat object to use `SCP`, but it thre…
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## System details:
#### Positron and OS details:
Positron Version: 2024.08.0 (Universal) build 48
Code - OSS Version: 1.91.0
Commit: ed616b36655fb24d116108bdd833f1321704315b
Date: 2024-08…
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Hi,
I am new to this topic, so please do not mind any noob question.
I downloaded .rds file (https://ftp.cngb.org/pub/CNSA/data4/CNP0002432/CRC_Stereo.rds) and read it using readRDS.
Next, I…
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### Please make sure these conditions are met
- [X] I have checked that this issue has not already been reported.
- [X] I have confirmed this bug exists on the latest version of anndata.
- [ ] (optio…
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Hi,
The experimental `anndata.concat` function is really useful. I was wondering whether `index_unique` as argument name is a bit misleading, however.
Given the name, I was expecting it to be a …
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Dear cellgeni team,
I'm trying to convert the pbmc_small Seurat object that is loaded by Seurat by default to anndata with sceasy. I use the following code:
```{r}
library(Seurat)
library(reti…