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Tumbles should be considered as a different step from runs.
This would allow the user to define e.g. a run_time and a tumble_time, and the microbe would be switching between the running state and the tumbling state with transition rates defined by these timescales.
More generally, this could go hand in hand with a full rewrite of the Motility implementation (#78).
The advantage is that setting a tumble_time=0 (or anything below the model.timestep) would reduce to the current implementation of instantaneous tumbles, but the new approach would allow the implementation of more refined models of chemotaxis and the reformulation of the run-tumble switching in terms of CCW bias, which is a more modern approach than just considering the tumbling rate.
The text was updated successfully, but these errors were encountered:
Tumbles should be considered as a different step from runs.
This would allow the user to define e.g. a
run_time
and atumble_time
, and the microbe would be switching between the running state and the tumbling state with transition rates defined by these timescales.More generally, this could go hand in hand with a full rewrite of the
Motility
implementation (#78).The advantage is that setting a
tumble_time=0
(or anything below themodel.timestep
) would reduce to the current implementation of instantaneous tumbles, but the new approach would allow the implementation of more refined models of chemotaxis and the reformulation of the run-tumble switching in terms of CCW bias, which is a more modern approach than just considering the tumbling rate.The text was updated successfully, but these errors were encountered: