tblPCALoadings: Return tibble with PCA loadings for features

In tnaake/MatrixQCvis: Shiny-based interactive data-quality exploration for omics data

Return tibble with PCA loadings for features

Description

The function tblPCALoadings returns a tibble with loadings values for the features (row entries) in x.

Usage

tblPCALoadings(x, params)

Arguments

x	matrix, containing no missing values
params	list, arguments/parameters given to the function stats::prcomp

Details

The function tblPCALoadings acccesses the list entry rotation of the prcomp object.

Value

tbl

Author(s)

Thomas Naake

Examples

set.seed(1)
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
tblPCALoadings(x, params)

tnaake/MatrixQCvis documentation built on June 20, 2024, 7:22 a.m.