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Adding a dataset of tissue_type = "organoid" to Census scVI embedding #1271

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kavithakrishna1 opened this issue Sep 4, 2024 · 0 comments · May be fixed by #1318
Open

Adding a dataset of tissue_type = "organoid" to Census scVI embedding #1271

kavithakrishna1 opened this issue Sep 4, 2024 · 0 comments · May be fixed by #1318
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P1 Priority 1 - Improvement with wide impact, fix within 1 week user request

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@kavithakrishna1
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kavithakrishna1 commented Sep 4, 2024

Description

I would like to use the organoid dataset from this collection with Census scVI embedding to predict cell types of my retina organoid dataset. Currently this dataset is not in Census because it has tissue_type = "organoid"and thus, does not have scVI embeddings.

Context

There aren't many methods available for cell type annotation of organoids and I would be curious to see how this performs.
This particular paper/dataset is interesting to me because the methodology undertaken is similar to my dataset and I expect them to share characteristics. I can also see a population of RPE cells in this dataset which is my focus point.

@cathystoli cathystoli added the P1 Priority 1 - Improvement with wide impact, fix within 1 week label Sep 6, 2024
@ivirshup ivirshup linked a pull request Nov 21, 2024 that will close this issue
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Labels
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