Some of the things OpenMx can do, with commented examples

This is a page of example models. To learn about installing click here, for the OpenMx documentation and learning about path-based model and matrix syntax click here.

note: It is a new page for April 2019: If we go with this wiki as the basis for collecting all OpenMx Scripts, links will be added here.


Basic supported methods Path Analysis RAM LISREL Matrix algebra	Confirmatory Factor Analysis One factor models Multiple factor models Ordinal factor analysis Joint ordinal/continuous factor analysis	SEM, Indirect Effects, and Mediation Regression Ordinal regression Mediation and why not to use it
Measurement models and Psychometrics Item response theory Item factor analysis Measurement invariance Differential item functioning Test equating	Multiple groups Raw data Weighted least squares Extracting means, covariances, and thresholds with mxGetExpected	Growth and change Latent growth model in path form, matrix form, and in not one but two other styles Latent growth mixture model in path form and matrix form Regime switching model Independent mixture model with mxExpectationMixture Growth Mixture model Factor mixture model Dynamical systems analysis Latent differential equations
Multilevel SEM Multilevel regression models Multilevel factor models Multilevel structural equation models Multilevel mediation models Moderation Mediated moderation models Product of latent variables	Latent classes Latent class analysis Latent profile analysis Latent transition analysis Latent factor regression State space models Single-subject models Multi-subject models Hidden Markov models Network models	Modeling different types of Data correctly Continuous variables Ordinal variables Joint ordinal & continuous variables Contingency tables Gaussian Copulas Polychoric/Polyserial correlations
Modeling predictors, effects, definition variables, weights, missingness correctly Exogenous predictors Definition variables Fixed & random effects Sample weights Missing data Missing at random Non-ignorable missingness Censoring	How do I simulate data, power... Simulations Power analysis with mxPower and mxPowerSearch Meta Analysis with metaSEM Multiple group analysis	Twin Models umx includes many twin models including ACE, ACEv, simplex, sex-limitation, GxE, common pathway, independent pathway, etc. Genetic Epidemiology: numerous examples from Hermine Maes ACE / ADE Univariate / Multivariate Sex limitation GxE interaction Direction of causation Two-stage Twin family models Assortative mating models Extended pedigree models Niche selection
GREML and genomic SEM Molecular genetic variance component analysis (GREML, GCTA) Genomic Relatedness Matrix Restricted Maximum Likelihood Genetic Association analysis	Optimizers Full Information Maximum Likelihood Restricted Maximum Likelihood Weighted least squares Gradient-based quasi-Newton Newton-Raphson Direct Search - Nelder Mead Stochastic global optimization Expectation-Maximization (EM) User defined fit functions Custom compute plans	Parameter estimates and fit statistics Goodness-of-fit Getting chi-squared statistics with mxRefModels Using mxSE to get standard errors of functions of free parameters Using mxCI for profile likelihood confidence intervals Using mxMI for model modification Bootstrapping Robust Standard Errors Factor Scores Jack-knifing Cross-validation Modification indices with mxMI Bootstrap Likelihood ratio tests
How do I add covariates, different intervals for growth... Fixed ages for all participants Variable ages or assessment intervals for all participants Data harmonization	How to How do I plot results? How to pick starting values Leave them at zero Make an educated guess Use mxAutoStart Error Status Codes	Misc Cloud & big data Brownie baking Donating money Retro Mx

Basic supported methods

Path Analysis
RAM
LISREL
Matrix algebra

Confirmatory Factor Analysis

SEM, Indirect Effects, and Mediation

Regression
Ordinal regression
Mediation and why not to use it

Measurement models and Psychometrics

Item response theory
Item factor analysis
Measurement invariance
Differential item functioning
Test equating

Multiple groups

Raw data
Weighted least squares
Extracting means, covariances, and thresholds with mxGetExpected

Growth and change

Latent growth model in path form, matrix form, and in not one but two other styles
Latent growth mixture model in path form and matrix form
Regime switching model
Independent mixture model with mxExpectationMixture
Growth Mixture model
Factor mixture model
Dynamical systems analysis
Latent differential equations

Multilevel SEM

Multilevel regression models
Multilevel factor models
Multilevel structural equation models
Multilevel mediation models Moderation
Mediated moderation models
Product of latent variables

Latent classes

Latent class analysis
Latent profile analysis
Latent transition analysis
Latent factor regression
State space models
Single-subject models
Multi-subject models
Hidden Markov models
Network models

Modeling different types of Data correctly

Continuous variables
Ordinal variables
Joint ordinal & continuous variables Contingency tables
Gaussian Copulas
Polychoric/Polyserial correlations

Modeling predictors, effects, definition variables, weights, missingness correctly

Exogenous predictors
Definition variables
Fixed & random effects
Sample weights
Missing data
Missing at random
Non-ignorable missingness
Censoring

How do I simulate data, power...

Simulations
Power analysis with mxPower and mxPowerSearch
Meta Analysis with metaSEM
Multiple group analysis

Twin Models

umx includes many twin models including ACE, ACEv, simplex, sex-limitation, GxE, common pathway, independent pathway, etc.
Genetic Epidemiology: numerous examples from Hermine Maes
ACE / ADE
Univariate / Multivariate
Sex limitation
GxE interaction
Direction of causation
Two-stage Twin family models
Assortative mating models
Extended pedigree models
Niche selection

GREML and genomic SEM

Molecular genetic variance component analysis (GREML, GCTA)
Genomic Relatedness Matrix
Restricted Maximum Likelihood
Genetic Association analysis

Optimizers

Full Information Maximum Likelihood
Restricted Maximum Likelihood
Weighted least squares
Gradient-based quasi-Newton
Newton-Raphson
Direct Search - Nelder Mead
Stochastic global optimization
Expectation-Maximization (EM)
User defined fit functions
Custom compute plans

Parameter estimates and fit statistics

Goodness-of-fit
Getting chi-squared statistics with mxRefModels
Using mxSE to get standard errors of functions of free parameters
Using mxCI for profile likelihood confidence intervals
Using mxMI for model modification Bootstrapping
Robust Standard Errors
Factor Scores
Jack-knifing
Cross-validation
Modification indices with mxMI
Bootstrap Likelihood ratio tests

How do I add covariates, different intervals for growth...

Fixed ages for all participants
Variable ages or assessment intervals for all participants
Data harmonization

How to

How do I plot results?
How to pick starting values
Leave them at zero
Make an educated guess
Use mxAutoStart
Error Status Codes

Misc

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