ContrastStatTest.NA: Compute the statistic of the contrast test in presence of...

In metaGE: Meta-Analysis for Detecting Genotype x Environment Associations

Compute the statistic of the contrast test in presence of missing values

Description

The function ContrastStatTest compute the statistic of the contrast test.

Usage

ContrastStatTest.NA(
  Incidence,
  Contrast = NULL,
  Zmat,
  MatCorr,
  Data,
  Configs.list,
  IncidenceName
)

Arguments

Incidence	A matrix of incidence, as obtained from metaGE.incidence.
Contrast	A matrix of contrast, if NULL the identity matrix is used. (NULL by default)
Zmat	A matrix containing the Zscores of all markers (in rows) in each environment (in columns).
MatCorr	The inter-environments correlation matrix. Can be computed using metaGE.cor().
Data	A dataset containing the effect, the pvalues and the na configuration for all marker
Configs.list	A vector containing the NA configurations present in the dataset
IncidenceName	The name of the incidence.

Value

A dataset of two columns containing the pvalue of the test of contrast and the minimum number of environment per group of all markers.

metaGE documentation built on April 3, 2025, 8:48 p.m.