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This would be immensely useful for the GPU data science community as it would start to enable pipelines fully on GPU.
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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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Details on #1765 and #1784.
TL;DR:
* Before 0.10.0 there was `anndata._core.sparse_dataset.SparseDataset`
* In 0.10.0 there was `anndata._core.sparse_dataset.CSRDataset` and `anndata._core.spar…
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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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Tracker for bugs in the h5Seurat/H5AD converter. Please note:
- All support for reading and writing H5AD files is done through the h5Seurat intermediate. There is no direct `Seurat` object/H5AD savin…
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# AnnData selectors
*Note: I will be updating this to be easier to read, just wanted it up to share*
## Use case: Modified IO
I would like to able to specify read time transforms on specific …
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I am using the vignette to explore the functionality of the metacells package. Running the cleaning step [6] mc.ut.get_o_numpy(full, "__x__", sum=True) already consumes > 50 GB of RAM and takes > 4 CP…
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## Description
due to the server network, I can not run
img = sq.datasets.visium_hne_image()
adata = sq.datasets.visium_hne_adata()
so I downloaded the visium_fluo.h5ad on another computer …
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Love the repo! It's made my analysis much more versatile and saved me a ton of time. Is there anything planned to go from anndata to singlecellexperiment? I'm having issues with `Seurat::as.SingleCell…
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Hello,
I am attempting to export metadata after running inferCNV. I am able to export the CNV score and the Leiden clusters, however I would like to access everything that is also available in the …