RiverPlot: A function to create river plot to aggregate results from X...

In eralpdogu/MSstatsQC: Longitudinal system suitability monitoring and quality control for proteomic experiments

Description

A function to create river plot to aggregate results from X and mR charts or CUSUMm and CUSUMv charts.

Usage

RiverPlot(
  data = NULL,
  L = 1,
  U = 5,
  method = "XmR",
  listMean = NULL,
  listSD = NULL
)

Arguments

data	omma-separated (.csv), metric file. It should contain a "Precursor" column and the metrics columns. It should also include "Annotations" for each observation.
L	lower bound of the guide set.
U	upper bound of the guide set.
method	defines the method selected to construct control charts.
listMean	list of the means for each metric. It is used when mean is known. It is NULL when mean is not known. The default is NULL.
listSD	list of the standard deviations for each metric. It is used when standard deviation is known. It is NULL when mean is not known. The default is NULL.

Value

A river plot to aggregate results per metric generated from XmR.Summary.DataFrame data frame or CUSUM.Summary.DataFrame data frame.

Examples

# First process the data to make sure it's ready to use
sampleData <- DataProcess(S9Site54)
head(sampleData)
# Draw XmR summary plot
RiverPlot(data = sampleData)
RiverPlot(data = sampleData, L=1, U=20, method = "XmR",
                listMean = list("BestRetentionTime" = 27.78,
                                "TotalArea" = 35097129,
                                 "MaxFWHM" = 0.28,
                                 "MinStartTime" = 24),
                listSD = list("BestRetentionTime" = 8.19,
                              "TotalArea" = 34132861,
                              "MaxFWHM" = 0.054,
                              "MinStartTime" = 24)
                )

eralpdogu/MSstatsQC documentation built on April 17, 2020, 7:33 a.m.