zeroOneTable: Make Zero One Contingency Tables

In EHR: Electronic Health Record (EHR) Data Processing and Analysis Tool

Make Zero One Contingency Tables

Description

Make contingency tables for many binary outcomes and a binary covariate

Usage

zeroOneTable(EXPOSURE, phenotype)

Arguments

EXPOSURE	binary covariate (e.g., exposure).
phenotype	binary outcome (e.g., phenotype).

Details

Generates frequency and contingency tables for many binary outcomes (e.g., large number of phenotypes) and a binary covariate (e.g., drug exposure, genotypes) more efficiently.

Value

t00	frequency for non-exposed group and non-case outcome.
t01	frequency for non-exposed group and case outcome.
t10	frequency for exposed group and non-case outcome.
t11	frequency for exposed group and case outcome.

Author(s)

Leena Choi [e-mail] and Cole Beck [e-mail]

Examples

## full example data
data(dataPheWAS)
demo.covariates <- c('id','exposure','age','race','gender')
phenotypeList <- setdiff(colnames(dd), demo.covariates)
tablePhenotype <- matrix(NA, ncol=4, nrow=length(phenotypeList), 
dimnames=list(phenotypeList, c("n.nocase.nonexp", "n.case.nonexp", 
"n.nocase.exp", "n.case.exp")))
for(i in seq_along(phenotypeList)) {
    tablePhenotype[i, ] <- zeroOneTable(dd[, 'exposure'], dd[, phenotypeList[i]])
}

EHR documentation built on Dec. 28, 2022, 1:31 a.m.