volcanoDIA: volcanoDIA

In mgerault/DIAgui: A shiny app for processing DIAnn output in proteomics

volcanoDIA

Description

Plot volcano plot from your DIA data

Usage

volcanoDIA(
  data,
  control,
  treated,
  id = NULL,
  transformation = c("none", "log2"),
  tit = "",
  FDR = 0.01,
  FC_cut = 2.5,
  curvature = 0.1,
  save_file = FALSE
)

Arguments

data	Processed data from DIAnn (from iq processing or diann_matrix for example)
control	The names of the controls in your data (needs to match column names in your data)
treated	The names of the treated in your data (needs to match column names in your data)
id	A character indicating the name of the coulumns that conatins the ids. If NULL, will check for the column named 'id' or the rownames.
transformation	Which transformation do you want to apply (log2 or none)
tit	Title of your plot
FDR	The FDR for the volcano plot
FC_cut	The fold-change cutoff
curvature	The curvature used for the curve on the volcano plot
save_file	Save results file

Value

A volcano plot

mgerault/DIAgui documentation built on Nov. 7, 2024, 12:12 a.m.