ClustoCell

Overview

ClustoCell is a reference-independent framework for resolving cell types and states from single-cell transcriptomes by modelling cellular relationships using cell-intrinsic expression organisation rather than relying on global transcriptional variance or external reference labels.

ClustoCell stratifies expression within each cell and uses this structure to build cell-similarity graphs, identify biologically coherent populations, discover cluster-specific markers and optionally resolve sub-clusters. It is implemented in the CelliVerse R package and is designed to support the recovery of stable cellular communities, rare or transitional states, and malignant versus non-malignant populations.

Beyond clustering, the broader CelliVerse workflow connects ClustoCell results to marker assessment, feature selection and cell type annotation, including annotation with CelliVerse MarkerDB.