mirror of
https://github.com/agdamsbo/REDCapCAST.git
synced 2024-11-27 15:21:55 +01:00
63 lines
1.6 KiB
R
63 lines
1.6 KiB
R
# Installing the latest REDCapRITS from GitHub ------------------------------
|
|
#devtools::install_github("pegeler/REDCapRITS/R@s3methods")
|
|
#devtools::install_github("pegeler/REDCapRITS/R@longitudinal-data")
|
|
|
|
# Debugging reading in longitudinal datasets ------------------------------
|
|
# setwd(here::here(""))
|
|
|
|
# Reading in the files
|
|
file_paths <- file.path(
|
|
"test-data/test_splitr",
|
|
c(
|
|
records = "WARRIORtestForSoftwa_DATA_2018-06-21_1431.csv",
|
|
metadata = "WARRIORtestForSoftwareUpgrades_DataDictionary_2018-06-21.csv"
|
|
)
|
|
)
|
|
|
|
redcap <- lapply(file_paths, read.csv, stringsAsFactors = FALSE)
|
|
|
|
names(redcap) <- c("records", "metadata")
|
|
str(redcap)
|
|
|
|
# A bunch of blank rows
|
|
redcap[["metadata"]] <- redcap[["metadata"]][as.logical(nchar(redcap[["metadata"]][,1])),]
|
|
str(redcap, 1)
|
|
|
|
setdiff(redcap[["metadata"]][,1], names(redcap[["records"]]))
|
|
|
|
# Viewing the files
|
|
View(redcap[["records"]])
|
|
View(redcap[["metadata"]])
|
|
|
|
|
|
# Playing with the names --------------------------------------------------
|
|
|
|
vars_in_data <- names(redcap$records)
|
|
|
|
universal_fields <- c(
|
|
vars_in_data[1],
|
|
grep("^redcap_(?!(repeat)).*", vars_in_data, value = TRUE, perl = TRUE)
|
|
)
|
|
|
|
|
|
repeat_instrument_fields <- grep("^redcap_repeat.*", vars_in_data, value = TRUE)
|
|
|
|
|
|
# Give it a shot ----------------------------------------------------------
|
|
|
|
testCheck <- with(redcap, REDCap_split(records, metadata))
|
|
|
|
lapply(testCheck, names)
|
|
|
|
commonFields <- Reduce(intersect, lapply(testCheck, names))
|
|
|
|
commonFields
|
|
|
|
library(dplyr)
|
|
|
|
lapply(testCheck, glimpse) %>% invisible
|
|
|
|
testCheck[[1]] %>%
|
|
left_join(testCheck$informed_consent, by = commonFields) %>%
|
|
glimpse
|