CHETAH: Fast and accurate scRNA-seq cell type identification

CHETAH (CHaracterization of cEll Types Aided by Hierarchical classification) is an accurate, selective and fast scRNA-seq classifier. Classification is guided by a reference dataset, preferentially also a scRNA-seq dataset. By hierarchical clustering of the reference data, CHETAH creates a classification tree that enables a step-wise, top-to-bottom classification. Using a novel stopping rule, CHETAH classifies the input cells to the cell types of the references and to "intermediate types": more general classifications that ended in an intermediate node of the tree.

Package details

AuthorJurrian de Kanter [aut, cre], Philip Lijnzaad [aut]
Bioconductor views Classification Clustering RNASeq SingleCell
MaintainerJurrian de Kanter <>
Licensefile LICENSE
Package repositoryView on Bioconductor
Installation Install the latest version of this package by entering the following in R:
if (!requireNamespace("BiocManager", quietly = TRUE))


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CHETAH documentation built on Nov. 8, 2020, 8:02 p.m.