API Reference

The API reference follows the package structure and documents the public Python and Cython extension modules that make up bioscrape.

• Core Simulation API
  • bioscrape.types
  • bioscrape.simulator
  • bioscrape.analysis
  • bioscrape.random
• Inference API
  • bioscrape.inference
  • bioscrape.inference_setup
  • bioscrape.pid_interfaces
• Model I/O API
  • bioscrape.sbmlutil
• Optional Lineage API
  • AssignmentVolumeRule
  • CappedStateQueue
  • DeathEvent
  • DeathRule
  • DeltaVDivisionRule
  • DivisionEvent
  • DivisionRule
  • Event
  • GeneralDeathRule
  • GeneralDivisionRule
  • GeneralVolumeEvent
  • InteractingLineageSSASimulator
  • LineageCSimInterface
  • LineageModel
  • LineageRule
  • LineageSSASimulator
  • LineageVolumeCellState
  • LineageVolumeSplitter
  • LinearVolumeEvent
  • LinearVolumeRule
  • MultiplicativeVolumeEvent
  • MultiplicativeVolumeRule
  • ODEVolumeRule
  • ParamDeathRule
  • SafeLineageCSimInterface
  • SingleCellSSAResult
  • SpeciesDeathRule
  • TimeDivisionRule
  • VolumeDivisionRule
  • VolumeEvent
  • VolumeRule
  • py_PropagateCells()
  • py_PropagateInteractingCells()
  • py_SimulateCellLineage()
  • py_SimulateInteractingCellLineage()
  • py_SimulateSingleCell()
  • py_SimulateTurbidostat()
  • py_SingleCellLineage()
  • py_set_up_InteractingLineage()