CelLink
CelLink is a Python for single-cell multi-omics integration, especially for datasets with weak feature linkage and imbalanced cell populations. The link of the paper is https://www.biorxiv.org/content/10.1101/2024.11.08.622745v1
CelLink uniquely enables cell subtype annotation, correction of mislabelled cells, and spatial transcriptomic analyses by imputing transcriptomic profiles for spatial proteomics data. Its great ability to impute large-scale paired single-cell multi-omics profiles positions it as a pivotal tool for building single-cell multi-modal foundation models.
Check out the Tutorial section for its usage.
Note
The new GPU-supported version will be released in the future.