peptide_pv_tp_proc: Preparatory function for showing peptides with significant...

In HDXBoxeR: Analysis of Hydrogen-Deuterium Exchange Mass-Spectrometry Data

Preparatory function for showing peptides with significant differences between sets.

Description

Returns plot where significantly different peptides are colored in blue-red scheme.

Usage

peptide_pv_tp_proc(
  df,
  dfup,
  pv,
  sd,
  nb_row = 100,
  ranges = c(-Inf, seq(-30, 30, by = 10), Inf),
  pv_cutoff = 0.01,
  replicates = 3
)

Arguments

df	average data frame for procent deuteration. Generated using ave_timepoint() function.
dfup	average data frame for deuteration uptake. Generated using ave_timepoint() function.
pv	pvalues dataframes calculated using pv_timepoint() function
sd	standard deviation data.frame generated using sd_timepoint function
nb_row	number of peptides in each row. Plotting parameter.
ranges	ranges for coloring scheme. Default set to c(-Inf, seq(-30, 30, by=10), Inf)
pv_cutoff	p-value cutoff here set up to 0.01
replicates	number of replicates in sample. Default set to 3.

Value

plot with peptides which are significantly different between sets.

HDXBoxeR documentation built on Sept. 11, 2024, 8:40 p.m.