findNDim: Establish what subsets of loadings from PCA distance measure...

View source: R/Methods.R

findNDimR Documentation

Establish what subsets of loadings from PCA distance measure are used for for measuring cluster instability

Description

Establish what subsets of loadings from PCA distance measure are used for for measuring cluster instability

Usage

findNDim(n, distPCA, pcaMin, pcaMax)

Arguments

n

number of samples

distPCA

PCA reduced distance matrix

pcaMin

This is used to establish the number of minimum PCA features used for generating subsets. For small datasets up to 500 cells this equals pcaMin*n minimum features, where n is number of cells. For large datasets, this corresponds to the feature count that has proportion of variance less than pcaMin. Both pcaMin and pcaMax must be specified to be considered.

pcaMax

This is used to establish the number of maximum PCA features used for generating subsets. For small datasets up to 500 cells this equals pcaMax*n maximum features, where n is number of cells. For large datasets, this corresponds to the feature count that has proportion of variance less than pcaMax. Both pcaMin and pcaMax must be specified to be considered.

Value

list of numbers with each number corresponding to the number of loadings to use for clustering.


khazum/ccImpute_exp documentation built on May 25, 2022, 6:15 a.m.