Multitask benchmarking of single-cell multimodal omics integration methods,
with multibench: a Python API that runs 36 integration methods across
four categories (vertical, diagonal, mosaic, cross), scores them with scIB
metrics, and draws scIB-style bubble tables.
Documentation and tutorials: https://dsichang.github.io/scMultiBench/
Liu C, Ding S, Kim HJ, Long S, Xiao D, Ghazanfar S, Yang P. Multitask benchmarking of single-cell multimodal omics integration methods. Nature Methods 22, 2449-2460 (2025). https://doi.org/10.1038/s41592-025-02856-3
Each method you run has its own paper; please cite it alongside the benchmark.
The benchmark and the method scripts live in PYangLab/scMultiBench.