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

In mkajano/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.

mkajano/HDXBoxeR documentation built on Aug. 15, 2024, 9:12 a.m.