Part II · the loop, run live

The cell, as the model draws it

Drawn from the equations: every term is an arrow or is listed as absent as written. An arrow's width and the speed of its dots both follow the flux it carries; particles show log concentration and drift only so a pool reads as a population. Not to scale.

t = 0 s

What the marks mean

The Part II loop as a process diagram, drawn from the equations themselves: every term of every balance is either an arrow or is listed in the inspector as absent as written. The page solves the equations as you watch. An arrow's width and the speed of the dots running along it both follow the flux of the species it carries; the number on an arrow is how many of that species each turnover moves; and particles show how densely each pool sits in its compartment. Click any arrow, process, pool or compartment to inspect it and change its parameters.

The same thing as a table

Protocol

An experiment on the clock rather than a poke now: events run from t = 0, so the same description gives the same experiment every time. A × event multiplies the baseline, so a protocol composes with the handles in each sub-loop.

Inspector

Select an arrow, a reaction, a compartment or the mTORC1 node.

Render

Display only: these never touch the equations.

Simulation speed

Species are shown and hidden with the chips under the drawing, where the colours they stand for are.

Particles show

Particle count ×1

Show particles currency clones regulation values

Find a parameter

Every parameter of the model, the compartment volumes included, by name, description or sub-loop. With nothing typed, the list is what has been changed.