Version 3.2 (R2010a) SimBiology Software

This table summarizes what's new in Version 3.2 (R2010a):

New Features and Changes	Version Compatibility Considerations	Fixed Bugs and Known Problems
Yes Details below	Yes—Details labeled as Compatibility Considerations, below. See also Summary.	Bug Reports Includes fixes

New features and changes introduced in this version are:

• Stochastic Approximation Expectation-Maximization (SAEM) Algorithm for Fitting Population Data

• Enhanced Support for Importing NONMEM Formatted Files

• New Mode for Accelerating Simulations

• Enhanced Support for Applying Dosing to a Model and Dosing Multiple Compartments

• Support for Parameter Transformations

• Support for Error Models

• Functions and Properties Being Removed

Stochastic Approximation Expectation-Maximization (SAEM) Algorithm for Fitting Population Data

Now you can choose the SAEM algorithm when fitting population data. This functionality requires Statistics Toolbox™ (Version 7.3 or later).

The new stochastic algorithm for fitting NLME models is more robust with respect to starting values, enables parameter transformations, and relaxes assumption of constant error variance.

For more information, see:

• sbionlmefitsa in the SimBiology documentation

• nlmefitsa in the Statistics Toolbox documentation

• Pharmacokinetic Modeling Functionality in the SimBiology documentation

Enhanced Support for Importing NONMEM Formatted Files

Import data files with NONMEM^® interpretation of column headers. SimBiology interprets the data file during import and creates the data set to use during fitting. For more information see Importing Data — Supported Files and Data Types. After import you can also create dose schedules using the information in the imported data.

New Mode for Accelerating Simulations

SimBiology enables you to prepare your models for accelerated simulations. Use this functionality to run many simulations with different initial conditions, or to run very long simulations (for example, simulations that take a minute or longer to run). Before you can use this feature you must install a C compiler, and run mex -setup before you can use this feature. For more information see Accelerating Model Simulations and Analyses in the SimBiology documentation.

Enhanced Support for Applying Dosing to a Model and Dosing Multiple Compartments

Create and apply dosing using RepeatDose Object, ScheduleDose Object and the adddose method at the command line or the Doses pane in the desktop.

Compatibility Considerations

• Previously, simulating models with dosing information required the sbiosetdosingprofile function. Using sbiosetdosingprofile now errors and you must change how you apply dosing. For related information on dosing in pharmacokinetic models see About Dosing Types in the SimBiology documentation.

• Previously, you could specify that a parameter is dosed. Now only species can accept a dose.

• Previously, the PK models you created using the New Project Wizard or the construct method varied depending on the dose chosen. Now you get the same model, which allows you to change between dosing types.

Support for Parameter Transformations

During parameter fitting, you now can specify parameter transformations. The following parameter transformations are now supported:

• none

• log

• probit

• logit

You can specify parameter transformations in individual (sbionlinfit) and population fitting (sbionlmefit or sbionlmefitsa) functions . See Specifying Parameter Transformations in the SimBiology documentation.

Compatibility Considerations

Previously, sbionlinfit and sbionlmefit returned the log-transformed estimates for the fixed effects. Now sbionlinfit, sbionlmefit (and sbionlmefitsa) return untransformed and transformed estimates for the fixed effects.

Support for Error Models

Parameter fitting functionality now supports the following error models:

• constant

• proportional

• combined

• exponential

You can specify an error term in conjunction with a population fitting (sbionlmefitsa) function.

For more information see, Specifying an Error Model in the SimBiology documentation.

Functions and Properties Being Removed

Function or Property Name	What Happens When You Use Function or Property?	Use This Instead	Compatibility Considerations
sbiosetdosingprofile	Errors	RepeatDose Object, ScheduleDose Object, adddose	See the Compatibility Considerations subheading inEnhanced Support for Applying Dosing to a Model and Dosing Multiple Compartments.

Version 3.3 (R2010b) SimBiology Software

Version 3.1 (R2009b) SimBiology Software

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