plot_all: Visualize the results in different types of plots

Description Usage Arguments Value Examples

View source: R/wrapper_functions.R

Description

plot_all visualizes the results of the differential protein expression analysis in different types of plots. These are (1) volcano plots, (2) heatmaps, (3) single protein plots, (4) frequency plots and/or (5) comparison plots.

Usage

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plot_all(dep, plots = c("volcano", "heatmap", "single", "freq",
  "comparison"))

Arguments

dep

SummarizedExperiment, Data object which has been generated by analyze_dep or the combination of test_diff and add_rejections.

plots

"volcano", "heatmap", "single", "freq" and/or "comparison",

Value

Pdfs containg the desired plots.

Examples

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# Load datasets
data <- UbiLength
exp_design <- UbiLength_ExpDesign

# Import and process data
se <- import_MaxQuant(data, exp_design)
processed <- process(se)

# Differential protein expression analysis
dep <- analyze_dep(processed, "control", "Ctrl")

## Not run: 
# Plot all plots
plot_all(dep)

## End(Not run)

DEP documentation built on Nov. 8, 2020, 7:49 p.m.