dimReduce {netSmooth}R Documentation

Get lower dimension embedding

Description

Get lower dimension embedding

Usage

dimReduce(x, flavor = c("pca", "tsne"), k = 2, is.counts = TRUE,
  ntop = 500)

Arguments

x

gene expresison matrix [GENES x SAMPLES]

flavor

the algorithm to use to obtain the dimensionality reduction must be in c('pca', 'tsne')

k

the number of dimensions in the reduced dimension representation

is.counts

logical: is 'x' counts data

ntop

number of most variable genes to use for dimensionality reduction

Value

reduced dimensionality representation


[Package netSmooth version 1.2.0 Index]