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Thanks for developing this interesting program. While I am trying to run the algo, after training it fails giving the following:
88 if init_cluster is not None:
89 cluster_centers = comp…
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Hi,
SCENIC+ is a very useful software that has brought new insights to my research.
I downloaded the unpublished version of SCENIC+ around January 2023, but then the hard disk of our laboratory …
AIBio updated
1 month ago
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It seems that if we initialize the value in a dictionary `adata.uns[key]` with None, it will be ignored when saving to h5ad. As a result, when we load the file, `adata.uns[key]` will raise a KeyError.…
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Hi,
I am working with a very larger sc/sn RNA-Seq dataset. Starting from an h5ad file have used BPcells package to load data in-memory as follows:
`raw
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## Description
I encountered a KeyError when running the statistical analysis method in CellPhoneDB with interaction scoring enabled. I want to gracefully handle missing keys by returning np.nan inst…
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Hi,
I'm running the batch removal tutorial provided in:
[https://scgen.readthedocs.io/en/latest/tutorials/scgen_batch_removal.html](url)
My interest is the feature of you're software of producin…
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# Overview
Right now we have code all over the place for creating Vitessce data/configs:
https://github.com/hubmapconsortium/portal-containers
https://github.com/hubmapconsortium/vitessce-data
h…
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I'm working with the IMA sample dataset provided (IMA_sample.h5ad), and I've noticed that it doesn't contain the 'X_uce' embeddings in the .obsm attribute as expected. Here's what I see when I print t…
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There is an issue with operation of the [Dockerhub](https://hub.docker.com/r/fertiglab/pycogaps) version of pycogaps. There is a newer version of docker image available in the [ghcr](https://github.co…
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Hi I am running cpdb_statistical_analysis_method of cellphone db. My anndata shape is (6890, 2000) with following parameters:
```
cpdb_file_path = 'Resources/cellphonedb.zip'
meta_file_pat…