IsoPlot function — IsoPlot_fun • graphstatsr

A function to plot isotopic data from metabolomic experiments

Usage

IsoPlot_fun(
  feat_table = NULL,
  metadata_table = NULL,
  groups = "sample",
  relativeCID = TRUE,
  dodgeCID = FALSE,
  outpath = "./isoplot_results",
  pdf = TRUE,
  img = TRUE
)

Arguments

feat_table: Features table
metadata_table: Metadata table
groups: Grouping factor
relativeCID: Stacked barplot of CID with relative value (TRUE) or absolute value (FALSE)
dodgeCID: Stacked barplot of CID with dodge position (TRUE) or stack position (FALSE)
outpath: Output path
pdf: Output PDF (TRUE) or not (FALSE)
img: Output JPG (TRUE) or not (FALSE)

Value

A list containing the following elements:

Isoplot A list of ggplot objects containing the barplots of the experimental isotopologue fraction of each metabolite with error bars
EnrC13_TotArea A list of ggplot objects containing the barplots of the mean EnrC13 and Total Area of each metabolite (one figure per metabolite)
EnrC13_TotArea_allMet A list of ggplot objects containing the barplots of the mean EnrC13 and Total Area of all metabolites (one figure per sample or group of samples)

Examples

if (FALSE) { # \dontrun{
feat <- glue::glue(system.file(package = "graphstatsr"), "/dataset/isoplot_quantification_table.csv")
metadata <- glue::glue(system.file(package = "graphstatsr"), "/dataset/isoplot_metadata.csv")
res <- IsoPlot_fun(feat_table = feat, metadata_table = metadata, groups = "sample", 
  relativeCID = TRUE, outpath = "./isoplot_results")

} # }