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Visualize intensities of compounds with missing values

Source: R/metabolomics_plots.R
met.plot_detect.Rd

met.plot_detect generates density and CumSum plots of compound intensities with and without missing values.

Usage

met.plot_detect(
  mSetObj,
  plot = TRUE,
  imgName = "Plots/DensMissPlot",
  format = "pdf",
  export = TRUE,
  basesize = 10
)

Arguments

mSetObj

Input name of the created mSet object, Data container with missing values.

plot

(Logical, TRUE or FALSE) Shall the plot be returned in the RStudio 'Plots' pane?

imgName

(Character) Enter a name for the image file (if export = TRUE).

format

(Character, "png" or "pdf") image file format (if export = TRUE).

export

(Logical, TRUE or FALSE) Shall the plot be exported as PDF and PNG file?

basesize

(Numeric) Font sized used in the plot.

Value

Density and CumSum plots of intensities of proteins with and without missing values. The plot can be retrieved from within R via print(mSetObj$imgSet$missval_density.plot). (generated by ggplot).

References

adapted from package DEP (https://bioconductor.org/packages/DEP/).

Author

Nicolas T. Wirth mail.nicowirth@gmail.com Technical University of Denmark License: GNU GPL (>= 2)