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Dear Paul,
I found SeuratDisk very useful, thank you for implementing it!
I converted .h5ad file (~23G) to h5seurat(~28G) to work in Seurat. Then I saved it as h5seurat (becomes ~5G) and converted …
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Kidney bionetwork asked us to provide all the Tier 1 fields that we already have, to help contributors fill the Tier 1 fields.
We decided to try to demo that on Krishna et al (#996) to see how long t…
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Hi,
Thanks for creating such a great tool, love the pre-print.
I'm thinking about applying this method to some CosMx data. I already have a pipeline for importing CosMx data into squidpy and th…
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Hi, thanks for developing this very useful library.
I have a task where I'm looking to perform integration in Seurat, save that as an h5Seurat file and convert it to h5ad to load in python using Sc…
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Hello,
I followed your tutorial and processed mouse olfactory bulb data using SAW. Afterward, I read the GEM file (Mouse_olfa_S1.tissue.gem) from 04.tissuecut as a TSV file using pandas. I manually b…
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Hi,
I'm trying to convert the resulting corrected_adata coming from this tutorial [https://scgen.readthedocs.io/en/latest/tutorials/scgen_batch_removal.html](url)
saved as scgenres.h5ad to the .h5s…
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Hello,
I noticed that there was a new(ish) tutorial for performing conos with velocity information. It would be great if this was capable of working with "generic" h5ad files with spliced and unspl…
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## Description
...
## Minimal reproducible example
```python
import numpy as np
import os
import scanpy as sc
import squidpy as sq
sc.logging.print_header()
print(f"squidpy=={…
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Hi,
Great package. But I'm having issues converting a seurat object to h5ad file and then reading that file back in. I analyzed my data using Seurat and saved it as sc.h5ad
```
> SaveH5Seurat(…