Documentation for teUtils Version 0.99¶
This page describes the teUtils package.
Installation¶
To install teUtils use
pip install teUtils
For additional information go to https://github.com/sys-bio/teUtils
To read more about Tellurium, go to http://tellurium.analogmachine.org/
Overview¶
teUtils is a utilties package for Telluirum that provides a number of useful function. These are grouped into:
Plotting
Random Network Construction
Parameter Scanning
Pretty Tabular Output
Converting SBML in to Readable Differential Equations
File Utilties
Examples¶
import teUtils as tu # Build a random network using mass-action kintics with upto 10 species and 20 reactions antimonyModel = tu.buildNetworks.getRandomNetwork(10, 20) # Plot the species cocnentrations as a histogram for the roadrunne rmodel r tu.plotting.plotFloatingSpecies(r) # Plot a heatmap of the flux control coefficients tu.plotting.plotFluxControlHeatMap (r) # Plot a grid of phase portraits of all species in the model r tu.plotting.plotFluxControlHeatMap (r) # Generate the ODES for a SBML model stored in a file tu.odePrint.getODEsFromSBMLFile ('mymodel.xml')
- Random Network Building Utilities
- Plotting Utilities
plotAsciiConcentrationsBar()
plotAsciiReactionRatesBar()
plotRandSimGrid()
plotPhasePortraitGrid()
plotConcentrationControlHeatMap()
plotFluxControlHeatMap()
plotFluxControlBar()
plotConcentrationControlBar()
plotArrayHeatMap()
plotConcentrationControlIn3D()
plotFluxControlIn3D()
plotReactionRates()
plotFloatingSpecies()
plotArray()
testme()
- Simple Parmameter Scanning Functions
- ODE Printing Utilities
- Generate Simple Tabular Data
- File Utilities