CHETAH: a selective, hierarchical cell type identification method for single-cell RNA sequencing.

ABSTRACT: Cell type identification is essential for single-cell RNA sequencing (scRNA-seq) studies, currently transforming the life sciences. CHETAH (CHaracterization of cEll Types Aided by Hierarchical classification) is an accurate cell type identification algorithm that is rapid and selective, including the possibility of intermediate or unassigned categories. Evidence for assignment is based on a classification tree of previously available scRNA-seq reference data and includes a confidence score based on the variance in gene expression per cell type. For cell types represented in the reference data, CHETAH's accuracy is as good as existing methods. Its specificity is superior when cells of an unknown type are encountered, such as malignant cells in tumor samples which it pinpoints as intermediat

SUBMITTER: de Kanter JK 

PROVIDER: S-EPMC6895264 | biostudies-literature | 2019 Sep

REPOSITORIES: biostudies-literature