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CNORdt (version 1.14.0)

Add-on to CellNOptR: Discretized time treatments

Description

This add-on to the package CellNOptR handles time-course data, as opposed to steady state data in CellNOptR. It scales the simulation step to allow comparison and model fitting for time-course data. Future versions will optimize delays and strengths for each edge.

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Version

Version

1.14.0

License

GPL-2

Maintainer

A MacNamara

Last Published

February 15th, 2017

Functions in CNORdt (1.14.0)

getFitDT

The optimization function that finds the scaling factor for the boolean simulation
modelPB

modelPB
computeScoreDT

Compute the score of a model/data (time-course) set using a bitString to cut the model.
CNOlistPB

Toy data
convert2array

Converts the output of simulatorDT to a 3D array for other functions
gaBinaryDT

Genetic algorithm for optimizing models using multiple time-points
cutAndPlotResultsDT

Plot the results of a time-course optimization
simulatorDT

Discrete time simulation of a boolean model