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There are many cases where the choice of which variable to
put on which axis has to do with ease of interpretation of
the data. In meteorology, when plotting the state of the
atmosphere at a particular time, it makes most sense to plot
altitude (or pressure) on the vertical axis and temperature
and dew point on the horizontal. This gives one a mental
"snapshot" of the air above. Sticking with the
dependent-independent rule would give the same information
but would be less intuitive and harder to interpret.