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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…
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Hello, I have 3 studies which I want to annotate using a built reference. I wonder if what I am doing is correct. I label transfered from the built reference for each dataset. I integrated the 3 …
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With large Anndata objects, I sometimes want check the attributes present. The print/repr call does this okay, but becomes hard to read with highly populated objects and not possible to compared two o…
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The first and second step can be run,but when I run follow mode:
**tnode = sct.train.Trainer(atest2)**
such an error can occur:
ValueError Traceback (most recen…
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**User story**
Molecules data can fit into the AnnData model.
index: `molecule_id`
obs: [`cell_id`, `gene_id`]
obsm: [`spatial`, `temporal`, `rgb`]
var: empty
X: empty
I don't think we cu…
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### Description of the bug
Hi @zktuong,
it seems like the latest AnnData release broke Dandelion. Some internals got restructured, so the imports from `_core` don't work anymore as before.
In…
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Hello,
An error was encountered when I read the arrow file with the following input:
`adata = ArchR_h5ad.read_arrow('S5.arrow', use_matrix="TileMatrix")`
Was it due to a lot of variables with…
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Hi, I am having the same issue as in #12 when trying to load adata$uns.
```
Error in eval(expr, envir, enclos): Conversion from numpy array type 20 is not supported
Traceback:
1. (function (va…
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Hi Kai,
I'm trying to read CSR from a `.h5ad` file in Rust. It works with anndata. I'm using the Git versions from this repo.
I'm doing something like this:
```rust
let file = H5::open(path)?;…
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when I get the remove-background data named output.h5, i found there is no genes in the data!!! why?
![image](https://github.com/broadinstitute/CellBender/assets/34886794/c1abb235-cdce-4caa-9b4f-5026…