Description Usage Arguments Details Value Examples
Checks if optional parameters passed to dimensionality reduction method are valid and returns a list of all default and optinally set parameters.
1 | checkParams(params, method)
|
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. |
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
named list with default and specified parameters taken by specified dimensionality reduction method
1 2 | params_DRR <- checkParams(list(cv.folds=10), method="DRR")
params_ICA <- checkParams(list(fun="logcosh", maxit=500), method="ICA")
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