isomds: Conveinience function to run isoMDS on a SingleCellExperiment...

In jenzopr/singlecellutils: Utility functions for single-cell data

Description

Conveinience function to run isoMDS on a SingleCellExperiment object.

Usage

isomds(object, exprs_values, features = NULL, method = "spearman", ...)

Arguments

object	A SingleCellExperiment object.
exprs_values	String indicating which assay contains the data that should be used to perform isoMDS.
features	A character vector (of feature names), a logical vector or numeric vector (of indices) specifying the features to use for isoMDS. The default of NULL will use all features.
method	A character string specifying the method to be used to calulate a dissimilarity structure using WGCNA::cor.
...	Additional parameters to be passed on to MASS::isoMDS.

Value

A matrix with the k-dimensional embedding.

jenzopr/singlecellutils documentation built on June 12, 2019, 2:51 a.m.