mlm: Non-parametric, Asymptotic P-values for Multivariate Linear...

In isglobal-brge/EpiMutations: Robust outlier identification for DNA methylation data

Non-parametric, Asymptotic P-values for Multivariate Linear Models

Description

Fits a multivariate linear model and computes test statistics and asymptotic P-values for predictors in a non-parametric manner.

Usage

mlm(
  formula,
  data,
  transform = "none",
  contrasts = NULL,
  subset = NULL,
  fit = FALSE
)

Arguments

formula	object of class "formula" (or one that can be coerced to that class): a symbolic description of the model to be fitted.
data	an optional data frame, list or environment (or object coercible by as.data.frame to a data frame) containing the variables in the model. If not found in data, the variables are taken from environment(formula), typically the environment from which mlm is called.
transform	transformation of the response variables: "none", "sqrt" or "log". Default is "none".
contrasts	an optional list. See contrasts.arg in model.matrix.default. Default is "contr.sum" for ordered factors and "contr.poly" for unordered factors. Note that this is different from the default setting in options("contrasts").
subset	subset of predictors for which summary statistics will be reported. Note that this is different from the "subset" argument in lm.
fit	logical. If TRUE the multivariate fit on transformed and centered responses is returned.

Details

A Y matrix is obtained after transforming (optionally) and centering the original response variables. Then, the multivariate fit obtained by lm can be used to compute sums of squares, pseudo-F statistics and asymptotic P-values for the terms specified by the formula in a non-parametric manner.

Value

mlm returns an object of class "MLM", a list containing:

call	the matched call.
aov.tab	ANOVA table with Df, Sum Sq, Mean Sq, F values, partial R-squared and P-values.
precision	the precision in P-value computation.
transform	the transformation applied to the response variables.
na.omit	incomplete cases removed (see na.omit).
fit	if fit = TRUE the multivariate fit done on the transformed and centered response variables is also returned.

Author(s)

Diego Garrido-Martín

See Also

lm, Anova

isglobal-brge/EpiMutations documentation built on April 20, 2024, 9:05 a.m.