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· 7 min read

Today we officially released scvi-tools version 0.9.0 (changelog). This release marks the culmination of five months of work on the backend of the codebase, which came after three months of work on the frontend. In this short note, we officially introduce scvi-tools as a readily usable codebase that contains many implementations of probabilistic single-cell omics methods, and also features a high-level interface to accelerate the model development process. We start with some historical notes about our previous codebase, which was mostly used for internal developments in the last three years. We then describe the obstacles we found to its external adoption, and the foundational idea behind the new scvi-tools work: a high-level deep probabilistic programming library specialized for single-cell omics data.