PostProcessing.py File Reference

Namespaces
	pySTDLM.PostProcessing

Functions
def	pySTDLM.PostProcessing.openLMFile
	Open a Lattice Microbes File for reading. More...
def	pySTDLM.PostProcessing.closeLMFile
	Close a Lattice Microbes File. More...
def	pySTDLM.PostProcessing.showTraceFromFile
	Show species trace from a particular replicate. More...
def	pySTDLM.PostProcessing.plotTraceFromFile
	Plot species from an output file. More...
def	pySTDLM.PostProcessing.showTrace
	Show a specific species trace. More...
def	pySTDLM.PostProcessing.plotTrace
	Plot a specific species trace. More...
def	pySTDLM.PostProcessing.showAvgVarFromFile
	Show species from an output file. More...
def	pySTDLM.PostProcessing.plotAvgVarFromFile
	Plot species from an output file. More...
def	pySTDLM.PostProcessing.showAvgVar
	Show a specific species average over time and variance. More...
def	pySTDLM.PostProcessing.plotAvgVar
	Plot a specific species average over time and variance. More...
def	pySTDLM.PostProcessing.getOccupancyKymograph
	Compute the specie density(occupancy) among a slice of the simulation domain as a function over time for the given direciton. More...
def	pySTDLM.PostProcessing.plotOccupancyKymograph
	Plot a specific specie density(occupancy) among a slice of the simulation domain as a function of a direction over time. More...
def	pySTDLM.PostProcessing.showOccupancyKymograph
	Show a specific specie density(occupancy) among a slice of the simulation domain as a function of a direction over time. More...
def	pySTDLM.PostProcessing.plotPhaseSpace
	Plot the 2D or 3D phase space associated with the given species over the replicates indicated. More...
def	pySTDLM.PostProcessing.getTimesteps
	Extract the timestep times. More...
def	pySTDLM.PostProcessing.getSpecieTrace
	Extract data for a particular specie for the specified replicate. More...
def	pySTDLM.PostProcessing.getAvgVarTrace
	Get the average and variance of the specie trace over time. More...
def	pySTDLM.PostProcessing.getHistogram
	Get the histogram for a specie. More...
def	pySTDLM.PostProcessing.getPhaseSpace
	Get the nD phase space associated with the traces of species. More...