umx: Structural Equation Modelling in R with 'OpenMx'

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Create, run, and report structural equation and twin models quickly. If you're just starting out, try typing '?umx'.

Author
Timothy C Bates [aut, cre]
Date of publication
2016-12-05 21:43:33
Maintainer
Timothy C Bates <timothy.c.bates@gmail.com>
License
GPL-3
Version
1.4.9
URLs

View on CRAN

Man pages

confint.MxModel
Get confidence intervals from an MxModel
dl_from_dropbox
dl_from_dropbox
ex9_6
A multilevel dataset.
extractAIC.MxModel
extractAIC from MxModel
install.OpenMx
install.OpenMx
loadings
loadings Generic loadings function to extract factor loadings...
loadings.MxModel
loadings.MxModel
logLik
logLik.MxModel
mxSE
mxSE - Compute standard errors in OpenMx
plot.MxModel
Create a graphical figure from an MxModel
qm
qm
reliability
reliability
residuals.MxModel
Get residuals from an MxModel
RMSEA
Generic RMSEA function
RMSEA.MxModel
RMSEA function for MxModels
RMSEA.summary.mxmodel
RMSEA function for MxModels
umx
Helper Functions for Structural Equation Modelling in OpenMx
umxACE
umxACE: Build and run a Cholesky (uni- or multi-variate)
umxACEcov
umxACEcov: Build and run a Cholesky with covariates in the...
umxACESexLim
umxACESexLim: Build and run a sex-limitaiton twin model (not...
umxAdd1
umxAdd1
umx_add_variances
umx_add_variances
umx_aggregate
umx_aggregate
umxAPA
umxAPA
umx_APA_model_CI
umx_APA_model_CI
umx_APA_pval
umx_APA_pval
umx_apply
umx_apply
umx_as_numeric
umx_as_numeric
umxCF_SexLim
umxCF_SexLim
umx_check
umx_check
umx_check_model
umx_check_model
umx_check_names
umx_check_names
umx_check_OS
umx_check_OS
umx_check_parallel
umx_check_parallel
umxCI
umxCI
umxCI_boot
umxCI_boot
umxCompare
umxCompare
umx_cont_2_quantiles
umx_cont_2_quantiles
umx_cor
umx_cor
umxCov2cor
umxCov2cor
umx_cov2raw
Turn a cov matrix into raw data with umx_cov2raw
umxCovData
umxCovData
umx_cov_diag
umx_cov_diag
umxCP
umxCP: Build and run a Common pathway twin model
umx_default_option
umx_default_option
umx-deprecated
Deprecated. May already stop() code and ask to be updated....
umxDiagnose
mxDiagnostic
umxDrop1
umxDrop1: Unfinished function to mimic drop1 in OpenMx
umx_drop_ok
umx_drop_ok
umxEFA
umxEFA
umxEquate
umxEquate: Equate two or more paths
umxEval
umxEval
umxExpCov
Get the expected vcov matrix
umx_explode
umx_explode - like the php function 'explode'
umx_explode_twin_names
umx_explode_twin_names
umxExpMeans
umxExpMean
umxFactor
umxFactor
umx_find_object
umx_find_object
umxFitIndices
umxFitIndices
umxFixAll
umxFixAll: Fix all free parameters
umx_fix_first_loadings
umx_fix_first_loadings
umx_fix_latents
umx_fix_latents
umx_fun_mean_sd
umx_fun
umx_get_bracket_addresses
get mat[r,c] style cell address from an mxMatrix
umx_get_checkpoint
umx_get_checkpoint
umx_get_cores
umx_get_cores
umx_get_optimizer
umx_get_optimizer
umx_get_options
umx_get_options
umxGetParameters
umxGetParameters: Get parameters from a model
umx_grep
umx_grep
umxGxE
umxGxE: Implements ACE models with moderation of paths, e.g....
umxGxE_window
umxGxE_window
umx_has_been_run
umx_has_been_run
umx_has_CIs
umx_has_CIs
umx_has_means
umx_has_means
umx_has_square_brackets
umx_has_square_brackets
umxHetCor
umxHetCor
umxIP
umxIP: Build and run an Independent pathway twin model
umx_is_cov
umx_is_cov
umx_is_endogenous
umx_is_endogenous
umx_is_exogenous
umx_is_exogenous
umx_is_MxData
umx_is_ordered
umx_is_MxMatrix
umx_is_MxMatrix
umx_is_MxModel
umx_is_MxModel
umx_is_ordered
umx_is_ordered
umx_is_RAM
umx_is_RAM
umxJiggle
umxJiggle
umxLabel
umxLabel: Add labels to a RAM model, matrix, or path
umxLatent
umxLatent: Helper to ease making formative and reflective...
umx_lower2full
umx_lower2full
umx_make
umx_make umx using devtools
umx_make_bin_cont_pair_data
umx_make_bin_cont_pair_data
umx_make_fake_data
umx_make_fake_data
umx_make_MR_data
Simulate Mendelian Randomization data
umx_make_sql_from_excel
umx_make_sql_from_excel
umx_make_TwinData
umx_make_TwinData: Simulate twin data with control over A, C,...
umxMatrix
umxMatrix: labeled mxMatrix, with name in the first place
umx_means
umx_means
umx_merge_CIs
umx_merge_CIs
umxMI
umxMI
umxModify
umxModify: Add, set, or drop model paths by label.
umx_move_file
umx_move_file
umx_msg
umx_msg
umx_names
umx_names
umx_object_as_str
umx_object_as_str
umx_open
umx_open
umx_pad
Pad an Object with NAs
umxPadAndPruneForDefVars
umxPadAndPruneForDefVars
umx_paste_names
umx_paste_names
umxPath
umxPath: Easier (but powerful) specification of RAM paths.
umx_pb_note
umx_pb_note
umxPlotACE
umxPlotACE
umxPlotACEcov
umxPlotACEcov
umxPlotCP
umxPlotCP
umxPlotGxE
umxPlotGxE
umxPlotIP
umxPlotIP
umx_print
umx_print
umxRAM
umxRAM: Easy-to-use RAM model maker.
umxRAM2Ordinal
umxRAM2Ordinal
umx_read_lower
Read lower-triangle of data matrix from console or file
umxReduce
umxReduce
umx_rename
umx_rename
umx_rename_file
umx_rename_file
umx_reorder
umx_reorder
umx_residualize
umx_residualize
umx_rot
umx_rot
umx_round
umx_round
umxRun
umxRun: Run an mxModel
umx_scale
umx_scale
umx_scale_wide_twin_data
umx_scale_wide_twin_data
umx_set_auto_plot
umx_set_auto_plot
umx_set_auto_run
umx_set_auto_run
umx_set_checkpoint
umx_set_checkpoint
umx_set_condensed_slots
umx_set_condensed_slots
umx_set_cores
umx_set_cores
umx_set_optimizer
umx_set_optimizer
umxSetParameters
umxSetParameters: Set parameters in an mxModel
umx_set_plot_format
umx_set_plot_format
umx_set_table_format
umx_set_table_format
umx_show
umx_show
umx_standardize_ACE
umx_standardize_ACE
umx_standardize_ACEcov
umx_standardize_ACEcov
umx_standardize_CP
umx_standardize_CP
umx_standardize_IP
umx_standardize_IP
umx_standardize_RAM
umx_standardize_RAM
umx_string_to_algebra
umx_string_to_algebra
umxSummary
umxSummary.default
umxSummaryACE
umxSummaryACE
umxSummaryACEcov
umxSummaryACEcov
umxSummaryCP
umxSummaryCP
umxSummaryGxE
umxSummaryGxE
umxSummaryIP
umxSummaryIP
umxSummary.MxModel
umxSummary.MxModel
umx_swap_a_block
umx_swap_a_block
umxThresholdMatrix
umxThresholdMatrix: Helper makes a complete threshold matrix...
umx_time
umx_time
umx_trim
umx_trim
umxTwoStage
umxTwoStage
umxUnexplainedCausalNexus
umxUnexplainedCausalNexus
umxValues
umxValues: Set values in RAM model, matrix, or path
us_skinfold_data
Anthropometric data on twins
xmu_check_levels_identical
xmu_check_levels_identical
xmu_dot_make_paths
xmu_dot_make_paths (not for end users)
xmu_dot_make_residuals
xmu_dot_make_residuals (not for end users)
xmuHasSquareBrackets
xmuHasSquareBrackets
xmuLabel_Matrix
xmuLabel_Matrix (not a user function)
xmuLabel_MATRIX_Model
xmuLabel_MATRIX_Model (not a user function)
xmuLabel_RAM_Model
xmuLabel_RAM_Model (not a user function)
xmuMakeDeviationThresholdsMatrices
Make deviation threshold matrics
xmuMakeOneHeadedPathsFromPathList
xmuMakeOneHeadedPathsFromPathList
xmuMakeThresholdsMatrices
xmuMakeThresholdsMatrices (not a user function)
xmuMakeTwoHeadedPathsFromPathList
xmuMakeTwoHeadedPathsFromPathList
xmuMaxLevels
xmuMaxLevels
xmuMI
xmuMI
xmuMinLevels
xmuMinLevels
xmuPropagateLabels
xmuPropagateLabels (not a user function)
xmu_start_value_list
Make start values

Files in this package

umx
umx/inst
umx/inst/CITATION
umx/inst/extdata
umx/inst/extdata/GQ6.sql.xlsx
umx/NAMESPACE
umx/INSTALL
umx/NEWS
umx/data
umx/data/us_skinfold_data.rda
umx/data/ex9_6.rda
umx/R
umx/R/hermine_original_twinHetMulAceCon.R
umx/R/misc_and_utility.r
umx/R/model_builders.r
umx/R/build_run_modify.r
umx/R/mxSE.R
umx/R/umxCF_SexLim.R
umx/R/datasets_openmx.R
umx/R/fit_and_reporting.r
umx/R/xmu.r
umx/R/deprecated.r
umx/R/datasets.R
umx/README.md
umx/MD5
umx/DESCRIPTION
umx/man
umx/man/umxSummaryIP.Rd
umx/man/umx_paste_names.Rd
umx/man/umx_string_to_algebra.Rd
umx/man/umx_default_option.Rd
umx/man/umxPlotACE.Rd
umx/man/xmuMakeThresholdsMatrices.Rd
umx/man/umxThresholdMatrix.Rd
umx/man/umx_open.Rd
umx/man/umx_make_bin_cont_pair_data.Rd
umx/man/figures
umx/man/figures/IP.png
umx/man/figures/umxLatent.graffle
umx/man/figures/set_default_app.png
umx/man/figures/umxEFA.png
umx/man/figures/umx_help_figures.graffle
umx/man/figures/Duncan.pdf
umx/man/figures/Duncan.png
umx/man/figures/ACE.png
umx/man/figures/CP.png
umx/man/figures/formative.png
umx/man/figures/GxE.png
umx/man/figures/ACEcov.png
umx/man/figures/reflective.png
umx/man/figures/Bivariate_GxE.png
umx/man/umx_print.Rd
umx/man/us_skinfold_data.Rd
umx/man/umx_scale.Rd
umx/man/umxMatrix.Rd
umx/man/umx_set_plot_format.Rd
umx/man/install.OpenMx.Rd
umx/man/umx_set_condensed_slots.Rd
umx/man/umxCovData.Rd
umx/man/umx_is_endogenous.Rd
umx/man/umxTwoStage.Rd
umx/man/xmu_dot_make_paths.Rd
umx/man/umx_set_checkpoint.Rd
umx/man/umxSummaryGxE.Rd
umx/man/umx_make_MR_data.Rd
umx/man/umxExpCov.Rd
umx/man/xmuLabel_MATRIX_Model.Rd
umx/man/umxCov2cor.Rd
umx/man/umx_explode_twin_names.Rd
umx/man/umx_get_checkpoint.Rd
umx/man/xmuHasSquareBrackets.Rd
umx/man/extractAIC.MxModel.Rd
umx/man/umx_has_square_brackets.Rd
umx/man/umxSummary.Rd
umx/man/umxPlotCP.Rd
umx/man/umx_has_means.Rd
umx/man/umx_set_cores.Rd
umx/man/umx_reorder.Rd
umx/man/umx_fun_mean_sd.Rd
umx/man/umxCompare.Rd
umx/man/umx_standardize_RAM.Rd
umx/man/umxRAM.Rd
umx/man/umxCI.Rd
umx/man/confint.MxModel.Rd
umx/man/umxSetParameters.Rd
umx/man/umx_rot.Rd
umx/man/umx_get_optimizer.Rd
umx/man/umx_APA_model_CI.Rd
umx/man/umx_is_exogenous.Rd
umx/man/umx_grep.Rd
umx/man/umxEFA.Rd
umx/man/umx_check.Rd
umx/man/umx_aggregate.Rd
umx/man/dl_from_dropbox.Rd
umx/man/umxPath.Rd
umx/man/umx_swap_a_block.Rd
umx/man/umx_make_fake_data.Rd
umx/man/logLik.Rd
umx/man/umx_get_options.Rd
umx/man/umx_time.Rd
umx/man/umx_pb_note.Rd
umx/man/RMSEA.Rd
umx/man/umx_set_optimizer.Rd
umx/man/umx_is_cov.Rd
umx/man/xmuPropagateLabels.Rd
umx/man/umxGxE.Rd
umx/man/xmuMinLevels.Rd
umx/man/umx_is_ordered.Rd
umx/man/umx_object_as_str.Rd
umx/man/umx_standardize_ACE.Rd
umx/man/umx_cor.Rd
umx/man/umxCP.Rd
umx/man/umx_cov2raw.Rd
umx/man/umx_pad.Rd
umx/man/umx_set_table_format.Rd
umx/man/umx_find_object.Rd
umx/man/umx_merge_CIs.Rd
umx/man/umx_residualize.Rd
umx/man/umxAdd1.Rd
umx/man/qm.Rd
umx/man/umx_is_RAM.Rd
umx/man/umxFitIndices.Rd
umx/man/RMSEA.MxModel.Rd
umx/man/umxFactor.Rd
umx/man/umx_standardize_ACEcov.Rd
umx/man/umx_is_MxModel.Rd
umx/man/umxACESexLim.Rd
umx/man/umx_add_variances.Rd
umx/man/umx_set_auto_run.Rd
umx/man/umx_move_file.Rd
umx/man/umxPlotGxE.Rd
umx/man/loadings.MxModel.Rd
umx/man/umxPadAndPruneForDefVars.Rd
umx/man/umx_standardize_IP.Rd
umx/man/umxModify.Rd
umx/man/umxCI_boot.Rd
umx/man/residuals.MxModel.Rd
umx/man/xmuMakeTwoHeadedPathsFromPathList.Rd
umx/man/umx_read_lower.Rd
umx/man/umx_cont_2_quantiles.Rd
umx/man/umx_fix_first_loadings.Rd
umx/man/umx_lower2full.Rd
umx/man/umxValues.Rd
umx/man/umx_trim.Rd
umx/man/umxSummary.MxModel.Rd
umx/man/umx_cov_diag.Rd
umx/man/umx_means.Rd
umx/man/umx_drop_ok.Rd
umx/man/reliability.Rd
umx/man/umx.Rd
umx/man/umx_make_sql_from_excel.Rd
umx/man/umxRun.Rd
umx/man/umxLabel.Rd
umx/man/umxACE.Rd
umx/man/umxSummaryACE.Rd
umx/man/xmu_check_levels_identical.Rd
umx/man/xmu_start_value_list.Rd
umx/man/umx_get_cores.Rd
umx/man/umx_round.Rd
umx/man/umx-deprecated.Rd
umx/man/umxEquate.Rd
umx/man/umxRAM2Ordinal.Rd
umx/man/umx_set_auto_plot.Rd
umx/man/umx_explode.Rd
umx/man/umxExpMeans.Rd
umx/man/umx_as_numeric.Rd
umx/man/RMSEA.summary.mxmodel.Rd
umx/man/plot.MxModel.Rd
umx/man/umx_make_TwinData.Rd
umx/man/umxUnexplainedCausalNexus.Rd
umx/man/xmuMakeDeviationThresholdsMatrices.Rd
umx/man/ex9_6.Rd
umx/man/umxPlotACEcov.Rd
umx/man/umxJiggle.Rd
umx/man/mxSE.Rd
umx/man/loadings.Rd
umx/man/umx_has_CIs.Rd
umx/man/xmuMaxLevels.Rd
umx/man/umxCF_SexLim.Rd
umx/man/umxSummaryACEcov.Rd
umx/man/umx_fix_latents.Rd
umx/man/umxAPA.Rd
umx/man/umx_check_names.Rd
umx/man/umxPlotIP.Rd
umx/man/umxDiagnose.Rd
umx/man/umxGxE_window.Rd
umx/man/umx_rename_file.Rd
umx/man/umx_rename.Rd
umx/man/umx_check_model.Rd
umx/man/xmuMI.Rd
umx/man/umxFixAll.Rd
umx/man/umxACEcov.Rd
umx/man/umx_is_MxMatrix.Rd
umx/man/xmuMakeOneHeadedPathsFromPathList.Rd
umx/man/umxIP.Rd
umx/man/umx_show.Rd
umx/man/umx_check_parallel.Rd
umx/man/umxLatent.Rd
umx/man/umxEval.Rd
umx/man/umxHetCor.Rd
umx/man/xmuLabel_Matrix.Rd
umx/man/umxGetParameters.Rd
umx/man/umx_msg.Rd
umx/man/umxSummaryCP.Rd
umx/man/umx_make.Rd
umx/man/umx_standardize_CP.Rd
umx/man/umx_scale_wide_twin_data.Rd
umx/man/umx_is_MxData.Rd
umx/man/umx_get_bracket_addresses.Rd
umx/man/umxDrop1.Rd
umx/man/umxReduce.Rd
umx/man/umx_names.Rd
umx/man/umx_has_been_run.Rd
umx/man/umx_apply.Rd
umx/man/xmuLabel_RAM_Model.Rd
umx/man/xmu_dot_make_residuals.Rd
umx/man/umx_APA_pval.Rd
umx/man/umx_check_OS.Rd
umx/man/umxMI.Rd