plot_heat_map_tp: Plots heat maps for significant peptides.

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

Plots heat maps for significant peptides.

Description

Returns heat map with average values for significant uptake per residue.

Usage

plot_heat_map_tp(
  df,
  mar_x = 3.5,
  ranges = c(-Inf, seq(-30, 30, by = 10), Inf),
  pv_cutoff = 0.01,
  replicates = 3
)

Arguments

df	average data frame. Generated using ave_timepoint() function.
mar_x	margin x width. Default=3.5
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

heat map for average uptake per residue for significant peptides.

Examples

file_nm<-system.file("extdata", "All_results_table.csv", package = "HDXBoxeR")
a<- output_tp(file_nm)
plot_heat_map_tp(df=a, replicates=3, pv_cutoff=0.01,
ranges=c(-Inf,-40, -30,-20,-10, 0,10, 20,30,40, Inf) )
plot_heat_map_tp(df=a)

mkajano/HDXBoxeR documentation built on April 23, 2024, 12:28 a.m.