Just like report, plots can be edited or created from scratch if the predefined plots from the Output Assistant don’t fit your needs.
In the object tree on the left in the Output node, you can find the entry
called Plots. Selecting this will bring you to the plot definition overview
which will probably be empty.
Now you can either create a new plot by clicking on the New
button, or
you can edit one of the existing plots if there are any. To edit a plot, double
click on its entry in the table. (For newly created plots, you have to double
click twice since the first double click will only "commit" the plot.)
In order to add new curves to the plot, you click on the New curve...
button. This will open a selection dialog where you can select one item for the
x-axis of the plot on the left side of the dialog and one or more items for
the y-axis on the right side of the dialog. E.g. to define a plot of all
species concentrations against time , you would select the Model Time
for the x-axis and the transient concentrations of all species for the y-axis.
Each curve item gets its own entry in the plot definition dialog and you can edit
attributes of the curve by selecting the corresponding entry in the list at the left. If you click the
Delete curve
button while a entry is selcted, the corresponding curve
item is deleted from the plot.
Once you are finished with the plot definition,
you go back to the Time Course dialog and push the Run
button again.
Now you a new plot window like the one below, with the concentrations of all species on the y axis plotted against
the time on the x axis, should pop up.