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The cellxgene desktop GHA compatibility matrix tests have intermittently failing jobs, all failing at the `smoke-test-annotations` step. E.g. see https://github.com/chanzuckerberg/cellxgene/actions/ru…
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Hi David.
First of all let me compliement and thank you for your excellect research, code, and documentation.
I am beginning a similar meta-analysis, and would like to adapt align_snake to prepr…
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**Describe the bug**
```bash
# This works
cellxgene launch s3:///test_data.h5ad --gene-sets-file /local/gene_sets.csv --port 5005
# This doesn't work
cellxgene launch s3:///test_data.h5ad --gen…
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The retina atlas has been approved and updated in CELLxGENE.
We should be able to release it after one final review!
Please move the retina information to its own PR and I will deploy this branch …
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Is it possible to return a joint graph visualization given a list of CellType objects ?
Something akin to the [cellxgene cell ontology graph](https://cellxgene.cziscience.com/cellguide/CL_0000084) wo…
j-bac updated
6 months ago
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Should the API use types? Particularly to use in method arguments?
Advantages include:
- Help users catch errors and typos.
- Help communicate which parameters are valid.
- IDE can provide auto-compl…
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**Describe the bug**
Cellxgene fails to launch s3 datasets (..h5ad files) that are larger than 1 GB
**To Reproduce**
Steps to reproduce the behavior:
I'm using cellxgene version 1.0.1.
We have …
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**Is your feature request related to a problem? Please describe.**
It's currently difficult to run the cellxgene server behind a reverse proxy at a path other than `/` because no option is provided f…
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We currently recommend installation of cellxgene in conda using pip, which is brittle to scientists installing additional packages using `conda install`.
Friederike Dundar suggests that we either …
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**LAST EDITED: Aug, 29, 2024**
See parent Epic for further information.
https://github.com/chanzuckerberg/single-cell/issues/644
See current draft for spatial support in SOMA https://docs.goog…