dplot_across_osns: dplot_across_osns

In ropensci/DoOR.functions: Integrating Heterogeneous Odorant Response Data into a Common Response Model: A DoOR to the Complete Olfactome

dplot_across_osns

Description

plot the activation patterns of one or several odorants across OSNs

Usage

dplot_across_osns(odorants,
  response_matrix = door_default_values("door_response_matrix"),
  odor_data = door_default_values("odor"),
  door_mappings = door_default_values("door_mappings"),
  zero = door_default_values("zero"), tag = "Name", sub, plot.type = 1,
  base_size = 12)

Arguments

odorants	character vector, one or several InChIKeys
response_matrix	DOOR response matrix, contains the data to plot
odor_data	data frame, contains the odorant information.
door_mappings	data frame, containing the mappings of response profiles to morphological structures.
zero	character, InChIKey of the odorant that should be set to 0 (e.g. SFR)
tag	character, the chemical identifier to use in the plot, one of colnames(odor)
sub	character vector, specify one or several classes of sensilla the plot should be restricted to. One or several of: "ab" "ac", "at", "ai", "pb", "sacI", "sacII"
plot.type	interger, 1 or 2, defining the type of plot (1: facet_grid of odorants * sensillae, 2: facet_wrap across OSNs)
base_size	numeric, the base font size for the ggplot2 plot

Details

DoOR response profiles will be selected and ordered according to the OSNs they are related to. Several DoOR response profiles might exist for a given OSN (e.g. one for the OSN itself and one for the OSNs misexpressed receptor protein) but only one will be shown. Which DoOR profile is mapped to which OSN is controlled via the "code.OSN" column in DoORmapings.

Value

a ggplot2 object

Author(s)

Daniel Münch <[e-mail]>

Examples

# load DoOR data & functions
library(DoOR.data)
library(DoOR.functions)

# pick example odorants by name ans transform their ID to InChIKey 
odorants <- trans_id(c("1-butanol", "isopentyl acetate", "carbon dioxide", "water"), 
from = "Name", to = "InChIKey")
 
# plot                                      
dplot_across_osns(odorants)
# plot only across ac and at sensillae
dplot_across_osns(odorants, sub = c("ac", "at"))
# plot across sensory neurons
dplot_across_osns(odorants, plot.type = 2)

ropensci/DoOR.functions documentation built on Feb. 22, 2024, 9:44 a.m.