Skip to contents

Run SC3 clustering for a specific k.

Source: R/clustering.R
calc_sc3.Rd

See SC3::sc3() for more details.

Usage

calc_sc3(sce_pca, sc3_k, is_integration, BPPARAM = BiocParallel::SerialParam())

Arguments

sce_pca

A SingleCellExperiment object with calculated PCA.

sc3_k

An integer vector: numbers of clusters for SC3.

is_integration

A logical scalar: if TRUE, clusterings will be named as cluster_int_*, otherwise cluster_*.

BPPARAM

A BiocParallel::BiocParallelParam object.

Value

A SingleCellExperiment object as returned from SC3::sc3().

Details

If is_integration is TRUE, logcounts(sce_pca) will be coerced to matrix.