BacArena (version 1.8.2)

plotSpecActivity: Function to plot substance usage for every species

Description

The generic function plotSpecActivity displays the input/output substances with the highest variance (could also be defiened manually) for all species

Usage

plotSpecActivity(
  simlist,
  subs = list(),
  var_nr = 10,
  spec_list = NULL,
  ret_data = FALSE,
  useNames = FALSE,
  rm_unused = TRUE,
  cutoff = 1e-06
)

Arguments

simlist

An object of class Eval or a list with objects of class Eval.

subs

List of substance names

var_nr

Number of most varying substances to be used (if subs is not specified)

spec_list

List of species names to be considered (default all)

ret_data

Set true if data should be returned

useNames

Use substance names instead of ids

rm_unused

Remove substances which do not change from plot

cutoff

Minimum valu for fluxes to be considered

Details

Returns ggplot objects