insulin_receptor_best_fits

Estimated parameters for a mini model of the insulin receptor (IRbeta).

datasets

Provides an API for analysing repetitive parameter estimations and simulations of
mathematical models. Examples of mathematical models are Ordinary Differential equations (ODEs)
or Stochastic Differential Equations (SDEs) models. Among the analyses for parameter
estimation 'sbpiper' calculates statistics and generates plots for parameter density, PCA of the best
fits, parameter profile likelihood estimations (PLEs), and 2D parameter PLEs. These results can
be generated using all or a subset of the best computed parameter sets. Among the analyses
for model simulation 'sbpiper' calculates statistics and generates plots for deterministic
and stochastic time courses via cartesian and heatmap plots. Plots for the scan of one or two model
parameters can also be generated. This package is primarily used by the software 'SBpipe'.
Citation: Dalle Pezze P, Le Nov<c3><a8>re N. SBpipe: a collection of pipelines for automating
repetitive simulation and analysis tasks. BMC Systems Biology. 2017;11:46. <doi:10.1186/s12918-017-0423-3>.

Piero Dalle Pezze

sbpiper

Data Analysis Functions for 'SBpipe' Package

insulin_receptor_best_fits function

A data frame with 4 variables:<dl class="dl-horizontal">
 <dt>Estimation</dt><dd>the number of estimated parameter sets</dd>
 <dt>ObjectiveValue</dt><dd>the best objective value for this parameter estimation</dd>
 <dt>k1</dt><dd>First estimated parameter: kinetic rate constant for IRbeta phosphorylation.</dd>
 <dt>k2</dt><dd>Second estimated parameter: kinetic rate constant for IRbeta refractory status.</dd>
 <dt>k3</dt><dd>Third estimated parameter: kinetic rate constant for IRbeta dephosphorylation.</dd>
</dl>

Format

A parameter estimation data set including only the best evaluated fits. — insulin_receptor_best_fits

A data frame with 4 variables:<dl class='dl-horizontal'>
 <dt>Estimation</dt><dd>the number of estimated parameter sets</dd>
 <dt>ObjectiveValue</dt><dd>the best objective value for this parameter estimation</dd>
 <dt>k1</dt><dd>First estimated parameter: kinetic rate constant for IRbeta phosphorylation.</dd>
 <dt>k2</dt><dd>Second estimated parameter: kinetic rate constant for IRbeta refractory status.</dd>
 <dt>k3</dt><dd>Third estimated parameter: kinetic rate constant for IRbeta dephosphorylation.</dd>
</dl>

insulin_receptor_best_fits: A parameter estimation data set including only the best evaluated fits.

Description

Usage

Arguments

Format