Package: psychonetrics 0.16

Sacha Epskamp

psychonetrics: Structural Equation Modeling and Confirmatory Network Analysis

Multi-group (dynamical) structural equation models in combination with confirmatory network models from cross-sectional, time-series and panel data <doi:10.31234/osf.io/8ha93>. Allows for confirmatory testing and fit as well as exploratory model search.

Authors:Sacha Epskamp [aut, cre]

# Install 'psychonetrics' in R:

install.packages('psychonetrics', repos = c('https://sachaepskamp.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/sachaepskamp/psychonetrics/issues

Uses libs:

openblas– Optimized BLAS
c++– GNU Standard C++ Library v3
openmp– GCC OpenMP (GOMP) support library

Datasets:

Jonas - Jonas dataset
NA2020 - Network Analysis 2020 Self-Report Data
StarWars - Star Wars dataset

On CRAN:

openblas cpp openmp

8.09 score 58 stars 2 packages 74 scripts 810 downloads 3 mentions 102 exports 97 dependencies

Last updated from:59804e8d86. Checks:11 OK, 2 ERROR. Indexed: yes.

Target	Result	Time
linux-devel-arm64	OK	741
linux-devel-x86_64	ERROR	726
source / vignettes	OK	1012
linux-release-arm64	OK	760
linux-release-x86_64	ERROR	658
macos-release-arm64	OK	335
macos-release-x86_64	OK	1338
macos-oldrel-arm64	OK	357
macos-oldrel-x86_64	OK	1062
windows-devel	OK	857
windows-release	OK	868
windows-oldrel	OK	849
wasm-release	OK	463

Exports:addfit addMIs addSEs aggregate_bootstraps allequal bifactor BlumeCapel bootstrap changedata checkFisher checkJacobian cholesky CIplot compare corr covML covMLtoUB covUBtoML diagonalizationMatrix dlvm1 duplicationMatrix eliminationMatrix emergencystart equalityScoreTest esa esa_manual factorscores find_penalized_lambda fit fixpar fixstart freepar fromlavaan generate getmatrix getVCOV ggm groupequal groupfree gvar identify intersectionmodel Ising latentgrowth lnm logbook loop_psychonetrics lrnm lvm meta_ggm meta_gvar meta_lvm meta_var1 meta_varcov MIs ml_gvar ml_lnm ml_lrnm ml_lvm ml_rnm ml_ts_lvgvar ml_tsdlvm1 ml_var modelsearch panel_lvgvar panelgvar panellvgvar panelvar parameters parequal partialprune penalize penaltyVector prec precision prune refit resid residuals ri_clpm ri_clpm_search ri_clpm_stationary rnm runmodel setestimator setoptimizer setverbose show simplestructure stepup tolavaan transmod ts_lvgvar tsdlvm1 unionmodel unpenalize update_baseline update_saturated usecpp var1 varcov write_psychonetrics

Dependencies:abind backports base64enc bslib cachem checkmate cli cluster colorspace corpcor cpp11 data.table digest dplyr evaluate farver fastmap fdrtool fontawesome foreign Formula fs generics ggplot2 glasso glue GPArotation gridExtra gtable gtools highr Hmisc htmlTable htmltools htmlwidgets igraph IsingSampler isoband jpeg jquerylib jsonlite knitr labeling lattice lavaan lifecycle magrittr MASS Matrix memoise mgcv mime mnormt nlme nloptr nnet numDeriv optimx pbapply pbivnorm pbv pillar pkgconfig plyr png pracma psych purrr qgraph quadprog R6 rappdirs RColorBrewer Rcpp RcppArmadillo RcppEigen reshape2 rlang rmarkdown roptim rpart rstudioapi S7 sass scales stringi stringr tibble tidyr tidyselect tinytex utf8 vctrs viridisLite withr xfun yaml

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
Structural Equation Modeling and Confirmatory Network Analysis	psychonetrics-package psychonetrics
Aggregate Bootstrapped Models	aggregate_bootstraps
Constrain all elements of a matrix equal within groups	allequal
Bi-factor models	bifactor
Blume-Capel model	BlumeCapel
Bootstrap a psychonetrics model	bootstrap
Change the data of a psychonetrics object	changedata
Plot Analytic Confidence Intervals	CIplot
Model comparison	compare print.psychonetrics_compare
Maximum likelihood covariance estimate	covML covMLtoUB covUBtoML
Diagnostic functions	checkFisher checkJacobian
Lag-1 dynamic latent variable model family of psychonetrics models for panel data	dlvm1 panelgvar panellvgvar panelvar panel_lvgvar
Model matrices used in derivatives	diagonalizationMatrix duplicationMatrix eliminationMatrix
Reset starting values to simple defaults	emergencystart
Score (Lagrange Multiplier) test for cross-group equality constraints	equalityScoreTest
Ergodic Subspace Analysis	esa esa_manual plot.esa plot.esa_manual print.esa print.esa_manual
Compute factor scores	factorscores
Automated Lambda Selection for Penalized Estimation	find_penalized_lambda
Print fit indices	fit
Parameters modification	fixpar freepar
Attempt to Fix Starting Values	fixstart
Convert a lavaan model to a psychonetrics lvm	fromlavaan
Generate data from a fitted psychonetrics object	generate
Extract an estimated matrix	getmatrix
Obtain the asymptotic covariance matrix	getVCOV
Group equality constraints	groupequal groupfree
Ising model	Ising
Jonas dataset	Jonas
Latent growth curve model	latentgrowth
Retrieve the psychonetrics logbook	logbook
Parallel loop for psychonetrics	loop_psychonetrics
Continuous latent variable family of psychonetrics models	lnm lrnm lvm rnm
Meta-analytic latent variable model	meta_lvm
Meta-analytic VAR(1) model	meta_gvar meta_var1
Variance-covariance and GGM meta analysis	meta_ggm meta_varcov
Print modification indices	MIs
Multi-level latent variable model family	ml_lnm ml_lrnm ml_lvm ml_rnm
Multi-level Lag-1 dynamic latent variable model family of psychonetrics models for time-series data	ml_gvar ml_tsdlvm1 ml_ts_lvgvar ml_var
Stepwise model search	modelsearch
Network Analysis 2020 Self-Report Data	NA2020
Print parameter estimates	parameters
Set equality constraints across parameters	parequal
Partial pruning of multi-group models	partialprune
Penalized Maximum Likelihood Functions	penalize penaltyVector refit unpenalize
Stepdown model search by pruning non-significant parameters	prune
Class '"psychonetrics_bootstrap"'	psychonetrics_bootstrap-class show,psychonetrics_bootstrap-method
Class '"psychonetrics_log"'	psychonetrics_log-class show,psychonetrics_log-method
Model updating functions	addfit addMIs addSEs identify
Class '"psychonetrics"'	psychonetrics-class psychonetrics_samplestats-class resid,psychonetrics-method residuals,psychonetrics-method sessionInfo-class show,psychonetrics-method
Random intercept cross-lagged panel models	print.ri_clpm_search ri_clpm ri_clpm_search ri_clpm_stationary
Run a psychonetrics model	runmodel
Convenience functions	setestimator setoptimizer usecpp
Should messages of computation progress be printed?	setverbose
Generate factor loadings matrix with simple structure	simplestructure
Star Wars dataset	StarWars
Stepup model search along modification indices	stepup
Convert a psychonetrics lvm to a lavaan model	tolavaan
Transform between model types	transmod
Lag-1 dynamic latent variable model family of psychonetrics models for time-series data	tsdlvm1 ts_lvgvar
Unify models across groups	intersectionmodel unionmodel
Set a custom baseline or saturated reference model	update_baseline update_saturated
Lag-1 vector autoregression family of psychonetrics models	gvar var1
Variance-covariance family of psychonetrics models	cholesky corr ggm prec precision varcov
Write comprehensive model output to a text file	write_psychonetrics