ExampleR: ExampleR

In dbGaPCheckup: dbGaP Checkup

ExampleR

Description

Example data set and data dictionary with no errors.

Usage

data(ExampleR)

Format

R data file that contains two objects:

DD.dict.R

Data dictionary

DS.data.R

Data set

Source

library(tidyverse)
DD.dict.R <- DD.dict.A
DS.data.R <- DS.data.A
# Change SUBJECT_ID to a string
DS.data.R$SUBJECT_ID <- paste0("A",DS.data.R$SUBJECT_ID)
DD.dict.R$TYPE[DD.dict.R$VARNAME=="SUBJECT_ID"] <- "string"
# Change HX_DEPRESSION to a string
DS.data.R <- DS.data.R %>% mutate(HX_DEPRESSION = recode(HX_DEPRESSION, '0' = 'no','1'='yes','-9999' = '-9999'))
DD.dict.R$TYPE[DD.dict.R$VARNAME=="HX_DEPRESSION"] <- "string"
DD.dict.R$VALUES[DD.dict.R$VARNAME=="HX_DEPRESSION"] <- "-9999=missing value"
# Set the extra VALUES column names to blank
DD.dict.R$`...18`[DD.dict.R$VARNAME=="HX_DEPRESSION"] <- NA
DD.dict.R$`...19`[DD.dict.R$VARNAME=="HX_DEPRESSION"] <- NA
nval <- which(names(DD.dict.R) == "VALUES")
names(DD.dict.R)[(nval + 1):ncol(DD.dict.R)] <- ""
save(DD.dict.R, DS.data.R, file="ExampleR.rda")

dbGaPCheckup documentation built on Sept. 27, 2023, 5:06 p.m.