run.espresso.GxE: Runs a full ESPRESSO analysis

In agaye/ESPRESSO.GxE: Power Analysis and Sample Size Calculation for a gene-environment interaction model

Description

This function calls the functions required to run a full ESPRESSO analysis where the model consists of an outcome (binary or continuous) determined by two interacting covariates (a SNP and an environmental exposure)

Usage

run.espresso.GxE(simulation.params = NULL, pheno.params = NULL,
  geno.params = NULL, env.params = NULL, scenarios2run = 1)

Arguments

simulation.params	general parameters for the scenario(s) to analyse
pheno.params	paramaters for the outcome variables
geno.params	parameters for the genetic determinant
env.params	parameters for the environmental determinant
scenarios2run	the indices of the scenarios one wish to analyse

Value

a summary table that contains both the input parameters and the results of the analysis

Author(s)

Gaye A.

Examples

{

# load the table that hold the input parameters; each of the table
# hold parameters for 4 scenarios:
# scenario 1: a binary outcome determined by a binary SNP and binary exposure
# and an interaction between the the genetic variant and the environmental exposure
# scenario 2: a binary outcome determined by an additive SNP and continuous
# exposure and an interaction between the the genetic variant and the environmental exposure
# scenario 3: a quantitative outcome determined by a binary SNP and binary exposure,
# and an interaction between the the genetic variant and the environmental exposure
# scenario 4: a quantitative outcome determined by an additive SNP and continuous
# exposure and an interaction between the the genetic variant and the environmental exposure
data(simulation.params)
data(pheno.params)
data(geno.params)
data(env.params)

# run the function for the first two scenarios, two binomial models
run.espresso.GxE(simulation.params, pheno.params, geno.params, env.params, scenarios2run=c(1,2))

# run the function for the last two scenarios, two gaussian models
run.espresso.GxE(simulation.params, pheno.params, geno.params, env.params, scenarios2run=c(3,4))

}

agaye/ESPRESSO.GxE documentation built on May 10, 2019, 7:31 a.m.