plotPCALoadings: Plot for PCA loadings of features

View source: R/tab_dimensionreduction.R

plotPCALoadingsR Documentation

Plot for PCA loadings of features

Description

The function plotPCALoadings creates a loadings plot of the features.

Usage

plotPCALoadings(tbl, x_coord, y_coord)

Arguments

tbl

tbl as obtained by the function dimensionReduction

x_coord

character, column name of tbl that stores x coordinates

y_coord

character, column name of tbl that stores y coordinates

Details

The function takes as input the output of the function tblPlotPCALoadings. It uses the ggplotly function from plotly to create an interactive plotly plot.

Value

plotly

Author(s)

Thomas Naake

Examples

x <- matrix(rnorm(seq_len(10000)), ncol = 100)
rownames(x) <- paste("feature", seq_len(nrow(x)))
colnames(x) <- paste("sample", seq_len(ncol(x)))
params <- list(method = "euclidean", ## dist
    initial_dims = 10, max_iter = 100, dims = 3, perplexity = 3, ## tSNE
    min_dist = 0.1, n_neighbors = 15, spread = 1) ## UMAP
tbl <- tblPCALoadings(x, params)
plotPCALoadings(tbl, x_coord = "PC1", y_coord = "PC2")


tnaake/MatrixQCvis documentation built on July 1, 2024, 10:49 a.m.