dimReduce {netSmooth} | R Documentation

## Get lower dimension embedding

### Description

Get lower dimension embedding

### Usage

    dimReduce(
      x,
      flavor = c("pca", "tsne", "umap"),
      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', 'umap')
`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 1.8.0 Index]