Description Usage Arguments Value Examples
Return a ggplot object of a feature diagnostic multiplot
1 2 3 4 5 6 7 | annotation_diagnostic_multiplot_UI_helper(
cpdNb,
annotation,
splNum = NULL,
splColrColumn = NULL,
...
)
|
cpdNb |
(int) position of the feature to extract (1 to nbCpd) |
annotation |
(peakPantheRAnnotation) Annotation object |
splNum |
(int) NULL or number of spectra to plot, chosen randomly from all spectra. If NULL or equal to the total number of spectra, plot all spectra |
splColrColumn |
(str) NULL, None or a spectraMetadata column for colouring each sample |
... |
Additional parameters for plotting |
(ggplotObject) Diagnostic multiplot for a feature
1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 | ## Initialise a peakPantheRAnnotation object with 3 samples and 2 targeted
## compounds
# Paths to spectra files
spectraPaths <- c('./path/file1', './path/file2', './path/file3')
# targetFeatTable
targetFeatTable <- data.frame(matrix(vector(), 2, 8, dimnames=list(c(),
c('cpdID','cpdName','rtMin','rt','rtMax','mzMin','mz',
'mzMax'))), stringsAsFactors=FALSE)
targetFeatTable[1,] <- c('ID-1', 'Cpd 1', 3310., 3344.888, 3390., 522.194778,
522.2, 522.205222)
targetFeatTable[2,] <- c('ID-2', 'Cpd 2', 3280., 3385.577, 3440., 496.195038,
496.2, 496.204962)
targetFeatTable[,c(3:8)] <- vapply(targetFeatTable[,c(3:8)], as.numeric,
FUN.VALUE=numeric(2))
emptyAnnotation <- peakPantheRAnnotation(spectraPaths=spectraPaths,
targetFeatTable=targetFeatTable)
# Plot of an empty annotation
annotation_diagnostic_multiplot_UI_helper(cpdNb = 2,
annotation = emptyAnnotation,
splNum = NULL,
splColrColumn = NULL)
# Warning: the object has not been annotated, return an empty diagnostic
# plot list
|
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