CalculateImpVarCutoff

Input the name of the created mSetObj (see InitDataObjects)

mSetObj

alpha threshold, less is better, default less than 5 percentile based chi-square
note: spe and leverage are vectors, not a single value, but a list to store the result
note: the last model is Model.res, no spe
Calculate leverage cutoff based on permutation
Calculate the reference distribution of leverages
note: leverage.perm is a list with each member in a 3 column matrix

spe.thresh

leverage threshold, the higher better, default more than 95 percentile of permuted leverage

lev.thresh

This package contains the R functions and libraries underlying the popular MetaboAnalyst web server, including 500 functions for data processing, normalization, statistical analysis, metabolite set enrichment analysis, metabolic pathway analysis, and biomarker analysis. The package is synchronized with the web server. After installing and loading the package, users will be able to reproduce the same results from their local computers using the corresponding R command history downloaded from MetaboAnalyst, to achieve maximum flexibility and reproducibility.

CalculateImpVarCutoff: Perform OPLS-DA

Description

Usage

Arguments