Get samples matching the given subjects
Usage
getSampleFromSubject(
patients,
samples,
clinical = NULL,
rm.NA = TRUE,
match = NULL,
showMatch = FALSE
)Arguments
- patients
Character or list of characters: subject identifiers
- samples
Character: sample identifiers
- clinical
Data frame or matrix: clinical dataset
- rm.NA
Boolean: remove missing values?
- match
Integer: vector of subject index with the sample identifiers as name to save time (optional)
- showMatch
Boolean: show matching subject index?
Value
Names of the matching samples (if showMatch = TRUE,
a character with the subjects as values and their respective samples as names
is returned)
See also
Other functions for data grouping:
createGroupByAttribute(),
getGeneList(),
getSubjectFromSample(),
groupPerElem(),
plotGroupIndependence(),
testGroupIndependence()
Examples
subjects <- c("GTEX-ABC", "GTEX-DEF", "GTEX-GHI", "GTEX-JKL", "GTEX-MNO")
samples <- paste0(subjects, "-sample")
clinical <- data.frame(samples=samples)
rownames(clinical) <- subjects
getSampleFromSubject(subjects[c(1, 4)], samples, clinical)
#> [1] "GTEX-ABC-sample" "GTEX-JKL-sample"