Autophagy & Lysosomal Degradation Pathway (2D)

This 2D companion turns the 3D scene's autophagy pathway into a readable kinetic model: damaged cargo spawns, a phagophore nucleates and expands around it at a rate set by the induction slider, the closed autophagosome travels to one of a limited pool of lysosomes — queuing if none are free — and, once fused, degrades on an exponential clearance curve whose time constant depends on cargo size. Every stage has its own tunable rate instead of a fixed animation, so raising induction while starving the cell of lysosomes visibly creates the fusion bottleneck real cells face.