scvi-tools
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Deep probabilistic analysis of single-cell and spatial omics data
It seems that the link to the breast cancer dataset, one of the [built-in datasets](https://docs.scvi-tools.org/en/stable/api/reference/scvi.data.breast_cancer_dataset.html), has changed. ```python import scvi adata = scvi.data.breast_cancer_dataset() ``` ```pytb FileNotFoundError: Found file with no...
This allows DataSplitter and SemiSupervisedDataSplitter to pass kwargs to the DataLoader constructor in keeping with the DataSplitter API which states "**kwargs: Keyword args for data loader". The original implementation didn't...
## Introduction I would argue that after 5+ years of analysing droplet-based sc/snRNA-seq data, we know the top-N technical RNA detection effects: 1. Per-batch (10x reaction/inlet) detection rate originating from...
See https://github.com/scverse/anndata/pull/820
I'm having an issue creating a Solo model from an scVI model that was supplied continuous covariate data (percent mitochondrial reads, via "continuous_covariate_keys" parameter). The scVI model itself trains without...
This works but it missing the notebook gallery thumbnails as well as myst-nb does not currently have a prolog feature where we can inject the colab links.
Right now, scANVI uses a complex hierarchy of latent variables. The first layer removes batch effects and the second layer removes label effects. A simpler alternative would add a simple...