umx

Weight data across time.

Fishers Method of combining p-values.

Twin data: General Family Functioning, divorce, and well-being.

Generic RMSEA function

RMSEA function for MxModels

RMSEA function for MxModels

Compute an SE from a beta and p value

Print a money object

Convert Degrees to Degrees

dl_from_dropbox

Twin data for Direction of causation modelling

Extract AIC from MxModel

Compute NI given annual Earnings.

Compute the value of a principal & annual deposits at a compound interest over a number of years

Compute the percent change needed to return to the original value after percent off (or on).

Work the valuation of a company

Geometric Mean

Harmonic Mean

Install OpenMx, with choice of builds

Twin data: IQ measured longitudinally across 4 ages.

load libraries

loadings Generic loadings function to extract factor loadings from exploratory or confirmatory factor analyses.

Extract factor loadings from an EFA (factor analysis).

Succinctly select complete rows from a dataframe

Compute odds ratio (OR)

Create and display a graphical path diagram for a LISREL model.

Create and display a graphical path diagram for a model.

Create and display a graphical path diagram for a path-based twin model.

Plot a percent change graph

Test the power of an ACE model to detect paths of interest.

Print a RMSEA object

Print a scale "oddsratio" object

Print a percent object

Print a scale "reliability" object

qm

Convert Radians to Degrees

Report coefficient alpha (reliability)

Get residuals from an MxModel

Graphical display of genotypic effects.

Test if a factor model is identified

Show matrices of models in a easy-to-learn-from format.

Show matrices of models in a easy-to-learn-from format.

Show matrices of RAM models in a easy-to-learn-from format.

Functions for Structural Equation Modeling in OpenMx

Deprecated. May already stop() code and ask to be updated. May be dropped entirely in future.

Build and run a 2-group Cholesky ACE twin model (univariate or multivariate)

Run a Cholesky with covariates that are random (in the expected covariance matrix)

Build and run 2-group uni- or multi-variate ACE models based on VARIANCE (not paths).

Creates nicely formatted journal-style summaries of models, p-values, data-frames and much more.

A simple wrapper for mxAlgebra with name as the first parameter for more readable compact code.

A recipe Easter-egg for umx

Add (and, optionally, run) confidence intervals to a structural model.

umxCI_boot

umxCP: Build and run a Common Pathway twin model

Print a comparison table of one or more mxModel()s, formatted nicely.

Get confidence intervals from a umx model

Convert a covariance matrix into a correlation matrix

Diagnose problems in a model - this is a work in progress.

Build and run a 2-group Direction of Causation twin models.

Make a direction of causation model based on umxPath statements

FIML-based Exploratory Factor Analysis (EFA)

umxEquate: Equate two or more paths

Example code from Twin Research and Human Genetics Paper on umx

Get the expected vcov matrix

Extract the expected means matrix from an mxModel()

umxFactor

Return factor scores from a model as an easily consumable dataframe.

Get additional fit-indices for a model with umxFitIndices

umxFixAll: Fix all free parameters

Get parameters from a model, with support for pattern matching!

umxGxE: Implements ACE models with moderation of paths, e.g. by SES.

Implement the moving-window form of GxE analysis.

Purcell (2002) Bivariate GxE model: Suitable when twins differ on the moderator.

Create a matrix of correlations for variables of diverse types (binary, ordinal, continuous)

umxIP: Build and run an Independent Pathway twin model

umxJiggle

Convert lavaan string to a umxRAM model

Report modifications which would improve fit.

Make a mxMatrix with automatic labels. Also takes name as the first parameter for more readable code.

Catches users typing umxModel instead of umxRAM.

Return names of models found within a model

umxModify: Add, set, or drop model paths by label.

Display path estimates from a model, filtering by name and value.

Easier (and powerful) specification of paths in SEM.

Make a graphical display of an ACE model

Make a graphical display of an ACE model with covariates.

Produce a graphical display of an ACE variance-components twin model

Draw and display a graphical figure of Common Pathway model

Plot a Direction of Causation Model.

Easily plot functions in R

Plot the results of a GxE univariate test for moderation of ACE components.

Plot the results of a GxE univariate test for moderation of ACE components.

Draw a graphical figure for a Independent Pathway model

Draw and display a graphical figure of a Sex limitation model

Draw and display a graphical figure of a simplex model

Test power to detect specified path values in a model.

Build and run path-based SEM models

Convert a RAM model to a lavaan string

Reduce models, and report the results.

Reduce an ACE model.

Reduce a GxE model.

Rename a umxMatrix (in a model)

Generic SEM factor model loading rotation function

Rotate a CP solution

umxRun: Run an mxModel

Change or fix parameters (e.g. their values, labels, bounds, ..) in a model.

Multivariate sex limitation twin model

Build and run a simplex twin model (not ready for use!)

Summarize twin data

Shows a compact, publication-style, summary of umx models

Shows a compact, publication-style, summary of a RAM model

Shows a compact, publication-style, summary of a umx Cholesky ACE model

Present results of a twin ACE-model with covariates in table and graphical forms.

Shows a compact, publication-style, summary of a variance-based Cholesky ACE model.

Present the results of a Common-pathway twin model in table and graphical form

Shows a compact, publication-style, summary of a umx Direction of Causation model

Summarize a GxE model

Summarize a bivariate GxE twin model

Present the results of an independent-pathway twin model in table and graphical form

Shows a compact, publication-style, summary of a umx Sex Limitation model

Shows a compact, publication-style, summary of a Simplex model.

Make a multi-group model

Create the threshold matrix needed for modeling ordinal data.

Make a twin model from the model describing just one person

Build a SEM implementing the equivalent of 2-stage least squares regression

umxUnexplainedCausalNexus

Get or print the version of umx, along with detail from OpenMx and general system info.

AIC weight-based conditional probabilities.

Round p-values according to APA guidelines

Convenient formula-based cross-tabs & built-in summary functions

umx_apply

Like the php array_shift function: shifts an item off the beginning of a list

umx_as_numeric

umx_check

umx_check_OS

Check for required features in an OpenMx.

Check if a request name exists in a dataframe or related object

Check if OpenMx is using OpenMP, test cores, and get timings

umx_cont_2_quantiles

Report correlations and their p-values

Explode a string (Like the php function explode)

Break twin variable names (BMI_T1, BMI_T2) into base variable names (BMI, "_T", 1:2)

Read in files from pseudocons.

umx_find_object

Summarizing functions used in umx_aggregate and for umxAPA

Get bracket-style addresses from an mxMatrix

Get or set checkpointing for a model

Display umx options

Search for text

umx_has_CIs

umx_has_been_run

umx_has_means

Check if a label contains square brackets

Check if an object is an mxData object

umx_is_MxMatrix

umx_is_MxModel

umx_is_RAM

Check if variables in a dataframe are in a list of classes.

umx_is_cov

List endogenous variables in a model

umx_is_exogenous

Check if variables in a dataframe are numeric

Test if one or more variables in a dataframe are ordered

Take a long twin-data file and make it wide (one family per row)

Get values from lower triangle of a matrix

Convert lower-only matrix data to full (or enforce symmetry on a full matrix)

"make" the umx package using devtools: release to CRAN etc.

Simulate Mendelian Randomization data

Simulate twin data with control over A, C, and E parameters, as well as moderation of A.

umx_make_fake_data

Turn a cov matrix into raw data

Convert an excel spreadsheet in a text file on sql statements.

Convert a twin dataset into umx standard format.

umx_means

Move files

Print the name and compact contents of variable.

umx_names

Open a file or folder

Open the CRAN page for a package

Pad an Object with NAs

Concatenate base variable names with suffixes to create wide-format variable names (i.e twin-format)

FIML-based polychoric, polyserial, and Pearson correlations

FIML-based Pairwise polychoric, polyserial, and Pearson correlations

FIML-based trio-based polychoric, polyserial, and Pearson correlations

Print tables in a range of formats (markdown default, see umx_set_table_format() for other formats) or as a web browser table.

Test the difference between correlations for significance.

Read lower-triangle of data matrix from console or file

Read and optionally merge demographics file from prolific academic

umx_rename

Rename files

Reorder or drop variables from a correlation/covariance matrix.

Easily residualize variables in long or wide dataframes, returning them changed in-place.

Rotate a vector

umx_round

Scale data columns, skipping non-scalable columns

Scale wide twin data

Score a psychometric scale by summing normal and reversed items.

Update NA values in one column with valid entries from another

umx_set_auto_plot

Automatically run models?

umx_set_checkpoint

umx_set_condensed_slots

umx_set_cores

umx_set_data_variance_check

Set options that affect optimization in OpenMx

Set the optimizer in OpenMx

Set output suffix used in umx SEM diagram files saved to disk.

Set output format of plots (structural diagrams) in umx

Set theme system to use for plots.

Set the separator

Turn off most console and summary output from umx

umx_set_table_format

Stack data like stack() does, with more control.

Return a standardized version of a Structural Model

Select desired characters from a string

Return variable name as a string

Convert a string to an OpenMx algebra

umx_time

Trim whitespace surrounding a string.

Get variances from a df that might contain some non-numeric columns

Change data family data from wide (2 twins per row) to long format.

umx_write_to_clipboard

Anthropometric data on twins

xmuHasSquareBrackets

xmuLabel: Add labels to a RAM model, matrix, or path

xmuLabel_MATRIX_Model (not a user function)

xmuLabel_Matrix (not a user function)