pySTDLM.StandardCells Namespace Reference

Functions
	buildEColiCell (sim, crowded=False, crowdedMembrane=False)
	buildDividingEColiCell (sim, crowded=False, crowdedMembrane=False)
	buildSphericalEColiCell (crowded=False, latticeSpacing=16, crowdedMembrane=False)
	buildFilamentousEColiCell (sim, length=8.0, crowded=False, crowdedMembrane=False)
	packFastGrowingEcoli (sim)
	packSlowGrowingEcoli (sim)

Function Documentation

buildDividingEColiCell()

pySTDLM.StandardCells.buildDividingEColiCell	(		sim,
			crowded = False,
			crowdedMembrane = False )

Build a standard E coli cell 0.5 microns across and 4 microns long.

Args:
    sim:
        An RDMESimulation object
    crowded:
        Should the cytosol be crowded (default: false)
    crowdedMembrane:
        Should the membrane be crowded (default: false)

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buildEColiCell()

pySTDLM.StandardCells.buildEColiCell	(		sim,
			crowded = False,
			crowdedMembrane = False )

Build a standard E coli cell 0.5 microns across and 2 microns long.

Args:
    sim:
        An RDMESimulation object
    crowded:
        Should the cytosol be crowded (default: false)
    crowdedMembrane:
        Should the membrane be crowded (default: false)

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buildFilamentousEColiCell()

pySTDLM.StandardCells.buildFilamentousEColiCell	(		sim,
			length = 8.0,
			crowded = False,
			crowdedMembrane = False )

Build a long filamentous E coli cell where the user can specify the length.

Args:
    sim:
        An RDMESimulation object
    length:
        The length of the cell in microns (default: 8)
    crowded:
        Should the cytosol be crowded (default: false)
    crowdedMembrane:
        Should the membrane be crowded (default: false)

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buildSphericalEColiCell()

pySTDLM.StandardCells.buildSphericalEColiCell	(		crowded = False,
			latticeSpacing = 16,
			crowdedMembrane = False )

Build a Spherical E coli cell, one that lacks the gene for elongation.

Args:
    sim:
        An RDMESimulation object
    crowded:
        Should the cytosol be crowded (default: false)
    crowdedMembrane:
        Should the membrane be crowded (default: false)

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packFastGrowingEcoli()

pySTDLM.StandardCells.packFastGrowingEcoli

(

sim

)

Pack a cell with the protein distribution for fast growing E coli.

Args:
    sim:
        A RDMESimulation object

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packSlowGrowingEcoli()

pySTDLM.StandardCells.packSlowGrowingEcoli

(

sim

)

Pack a cell with the protein distribution for fast growing E coli.

Args:
    sim:
        A RDMESimulation object

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