test.ANOVA: ANOVA for multiple contrasts
In statOmics/MSqRob: Robust statistical inference for quantitative LC-MS proteomics

test.ANOVA

R Documentation

ANOVA for multiple contrasts

Description

This function can test an ANOVA for multiple contrasts based on parameter estimates beta, a variance covariance matrix vcov, a number of degrees of freedom df, a residual error term sigma and a contrast matrix L.

Usage

test.ANOVA(beta, vcov, df, sigma, L, anova.na.ignore = TRUE)

Arguments

`beta`	A matrix with a single column containing parameter estimates.
`vcov`	A matrix of the estimated covariances between the parameter estimates.
`df`	A numeric value indicating the residual degrees of freedom.
`sigma`	A numeric value indicating a residual standard deviation.
`L`	A contrast matrix with the parameter levels as rows and a column for each contrast.
`anova.na.ignore`	A logical indicating whether contrasts that cannot be fitted due to missing observations should be ignored when calculating an F value (`anova.na.ignore = TRUE`) or NA should be returned when at least one contrast cannot be estimated (`anova.na.ignore = FALSE`). Defaults to `TRUE`.

Value

A matrix with a single row and with three columns: (1) AveExpr, containing the average estimate of the contrasts; (2) Fval, containing the F-value corresponding to the contrasts; (3) pval, containing the p-value corresponding to the contrasts.