PlotProteinCoverage: Protein coverage and degradation.

Description Usage Arguments Value Examples

View source: R/PlotProteinCoverage.R

Description

Protein coverage and degradation.

Usage

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PlotProteinCoverage(
  MQCombined,
  UniprotID = NULL,
  log_base = 2,
  segment_width = 2,
  palette = "Set2",
  plots_per_page = 5
)

Arguments

MQCombined

Object list containing all the files from the MaxQuant output. It is the result from using make_MQCombined.

UniprotID

Uniprot ID of the protein of interest.

log_base

The logarithmic scale for the intensity. Default is 2.

segment_width

Width of the segments to improve visualization. Default is 1.

palette

The palette from the Package RColorBrewer. By default is 'Set2'.

plots_per_page

Establish the maximum number of plots per page.

Value

Two plots for each sample, the end position vs the start position of each peptide of the given protein found. And the Intensity of a given peptide and its length.

Examples

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MQPathCombined <- system.file('extdata/combined/', package = 'MQmetrics')
MQCombined <- make_MQCombined(MQPathCombined)
PlotProteinCoverage(MQCombined, UniprotID = 'Q15149')

BioAlvaro/ProteoMS documentation built on Jan. 12, 2022, 9:46 a.m.