dimension_reduction-matrix-method: Visualize columns after dimension reduction
In cola: A Framework for Consensus Partitioning

Description Usage Arguments Value Author(s) Examples

Visualize columns after dimension reduction

## S4 method for signature 'matrix'
dimension_reduction(object,
    pch = 16, col = "black", cex = 1, main = "",
    method = c("PCA", "MDS", "t-SNE", "UMAP"),
    pc = NULL, control = list(),
    scale_rows = TRUE, nr = 5000,
    internal = FALSE, verbose = TRUE)

`object`	A numeric matrix.
`method`	Which method to reduce the dimension of the data. `MDS` uses `cmdscale`, `PCA` uses `prcomp`. `t-SNE` uses `Rtsne`. `UMAP` uses `umap`.
`pc`	Which two principle components to visualize
`control`	A list of parameters for `Rtsne` or `umap`.
`pch`	Ahape of points.
`col`	Color of points.
`cex`	Aize of points.
`main`	Title of the plot.
`scale_rows`	Whether perform scaling on matrix rows.
`nr`	If number of matrix rows is larger than this value, random `nr` rows are used.
`internal`	Internally used.
`verbose`	Whether print messages.