scviR
This package defines interfaces from R to scvi-tools. A vignette works through the totalVI tutorial for analyzing CITE-seq data. Another vignette compares outputs of Chapter 12 of the OSCA book with analogous outputs based on totalVI quantifications. Future work will address other components of scvi-tools, with a focus on building understanding of probabilistic methods based on variational autoencoders.
README
scviR The scviR package provides an experimental interface between R and scvi-tools. For Bioconductor 3.22, extensive changes have been made. We include an app that helps explore subclusters formed using expression data within clusters formed by abundance patterns of antibody-dependent tags. A basic concern is identification of subclusters identified by 'boolean' expression patterns of specific genes.
- Repository
- github.com/vjcitn/scvir
Source attribution
- Bioconductor — scviR
- GitHub — github.com/vjcitn/scvir
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