CHETAH
This package is for version 3.20 of Bioconductor; for the stable, up-to-date release version, see CHETAH.
Fast and accurate scRNA-seq cell type identification
Bioconductor version: 3.20
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.
Author: Jurrian de Kanter [aut, cre], Philip Lijnzaad [aut]
Maintainer: Jurrian de Kanter <jurriandekanter at gmail.com>
citation("CHETAH")):
Installation
To install this package, start R (version "4.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("CHETAH")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("CHETAH")
Details
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Follow Installation instructions to use this package in your R session.