getStatsAllLM: Function that runs Linear Models for all analytes

In IntLIM: Integration of Omics Data Using Linear Modeling

Function that runs Linear Models for all analytes

Description

Function that runs Linear Models for all analytes

Usage

getStatsAllLM(
  outcome,
  independentVariable,
  type1,
  type2,
  type,
  covar,
  covarMatrix,
  continuous,
  save.covar.pvals,
  remove.tri = FALSE,
  suppressWarnings = FALSE
)

Arguments

outcome	'1' or '2' must be set as outcome/independent variable
independentVariable	'1' or '2' must be set as outcome/independent variable
type1	Analyte type 1 dataset
type2	Analyte type 2 dataset
type	vector of sample type (by default, it will be used in the interaction term). Only 2 categories are currently supported.
covar	vector of additional vectors to consider
covarMatrix	covariate matrix
continuous	indicate whether data is discrete (FALSE) or continuous (TRUE)
save.covar.pvals	boolean to indicate whether or not to save the p-values of all covariates, which can be analyzed later but will also lengthen computation time.
remove.tri	boolean to indicate whether or not to remove the 1-1 or 2-2 pair with the highest p-value across two duplicate models (e.g. m1~m2 and m2~m1)
suppressWarnings	whether or not to suppress warnings

Value

list of matrices (interaction.pvalues, interaction.adj.pvalues, interaction.coefficients)

IntLIM documentation built on Aug. 22, 2022, 5:05 p.m.