Single-Cell Foundation Model Tracker

Every single-cell RNA-seq foundation model, ranked by citations, real usage, and whether anyone still maintains it

Single-cell foundation models are transformers pretrained on tens of millions of cells, then adapted to tasks like cell-type annotation, batch integration, and perturbation prediction. New ones appear monthly and the claims are hard to compare. This tracker measures three things that usually disagree: how much a model is cited, how much it is actually downloaded and starred, and how recently anyone touched the code. It also shows who is citing each model — and whether they used it or benchmarked it and found it wanting.

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