checkParams: Check optional dimensionaloty reduction method parameters

In HannahVMeyer/DrStable: Estimating the stability of dimensionality reduction results

Description

Checks if optional parameters passed to dimensionality reduction method are valid and returns a list of all default and optinally set parameters.

Usage

checkParams(params, method)

Arguments

params	list of parameters to check; list names must be identical to argument names of chosen dimensionality reduction method.
method	Dimensionality reduction method character to be applied; one of DiffusionMap, DRR, ICA, LLE, Isomap, LaplacianEigenmap, MDS, PCA, kPCA, nMDS, tSNE and UMAP.

Details

checkParams checks if specified parameters are valid parameters of the underlying dimensionality reduction methods. A list of the methods is provided below:

• Diffusion Map: diffuse

• Dimensionality reduction by regression (DRR): drr

• Independent component analysis (ICA): fastICA

• Local liner embedding (LLE): lle

• Isomap: isomap

• Laplacian Eigenmap: spec.emb and make.kNNG

• Multi-dimensional scaling (MDS) : cmdscale

• Principal component analysis (PCA): prcomp

• Kernel PCA (kPCA): kpca

• non-metrix MDS (nMDS): metaMDS

• t- stochastic neighbourhood embedding (tSNE): Rtsne

• Uniform manifold approximation and projection (umap): umap

Value

named list with default and specified parameters taken by specified dimensionality reduction method

Examples

params_DRR <- checkParams(list(cv.folds=10), method="DRR")
params_ICA <- checkParams(list(fun="logcosh", maxit=500), method="ICA")

HannahVMeyer/DrStable documentation built on Jan. 29, 2021, 11:42 a.m.