Human preimplantation development model spanning early stages of development. The model was trained utilizing single‐cell ANnotation using Variational Inference (scANVI, Xu et al., 2021) implemented in scvi-tools. In short, scANVI raw single-cell RNA sequencing (scRNA-seq) count matrix - cell by gene, where values represent gene expression measured by counting number of transcribed RNA.

Cell type (ct) prediction

Below we provide settings for scANVI setup

Proks, M., Salehin, N. & Brickman, J.M. Deep learning-based models for preimplantation mouse and human embryos based on single-cell RNA sequencing. Nat Methods 22, 207–216 (2025). https://doi.org/10.1038/s41592-024-02511-3