metaGE.incidence: Create the matrix of incidence.

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

Create the matrix of incidence.

Description

The function metaGE.incidence convert categorical variable describing the environments into a matrix of dummy variables with in rows the levels of the variables and in columns the environment.

Usage

metaGE.incidence(VarName, Covariate, EnvName, Data, AtLeast = 1)

Arguments

VarName	The name of the column containing the categorical variable in the Covariate dataset.
Covariate	A dataset containing categorical variables (in columns) describing the environments (in rows).
EnvName	The name of the column containing the names of the environment in the Covariate dataset.
Data	A dataset containing the effects and pvalues of each marker (in rows) in each environment (in columns), as obtained from metaGE.collect().
AtLeast	A numeric value indicating the minimum number of environments must belong to each level (equals 1 by default).

Details

The names of the environment must be the same as used in the Data dataset.

Value

A binary matrix containing indicator variables with in rows the levels of the variables and in columns the environment.

Examples

# Import the data
data("metaData")
data("envDesc")

# Build the matrix of incidence
(Incidence.Temp <- metaGE.incidence(VarName = "Temp",Covariate = envDesc,
                                    EnvName = "ShortName", Data = metaData))

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