Package: psychonetrics 0.17.7

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

7.89 score 61 stars 3 packages 2.5k downloads 3 mentions 114 exports 97 dependencies

Last updated from:230b6ece3e. Checks:15 OK. Indexed: yes.

Target	Result	Time
linux-devel-arm64	OK	674
linux-devel-x86_64	OK	735
source / vignettes	OK	811
linux-release-arm64	OK	653
linux-release-x86_64	OK	699
macos-release-arm64	OK	626
macos-release-x86_64	OK	1047
macos-oldrel-arm64	OK	582
macos-oldrel-x86_64	OK	1091
windows-devel-arm64	OK	1044
windows-devel-x86_64	OK	1117
windows-release-arm64	OK	1037
windows-release-x86_64	OK	994
windows-oldrel-x86_64	OK	867
wasm-release	OK	585

Exports:addfit addMIs addSEs aggregate_bootstraps allequal bifactor BlumeCapel bootstrap changedata checkFisher checkJacobian cholesky CIplot compare corr covML covMLtoUB covUBtoML diagonalizationMatrix dlvm 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_var meta_var1 meta_varcov MIs ml_corr ml_ggm ml_gvar ml_gvar1 ml_lnm ml_lrnm ml_lvm ml_rnm ml_ts_lvgvar ml_tsdlvm1 ml_var ml_var1 ml_varcov 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 ri_clpn ri_clpn_search ri_clpn_stationary rnm runmodel setestimator setoptimizer setverbose show simplestructure stepup summary tolavaan transmod ts_lvgvar tsdlvm 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	dlvm dlvm1 panellvgvar 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_var 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_tsdlvm1 ml_ts_lvgvar
Multi-level lag-1 vector auto-regression family (random intercepts)	ml_gvar ml_gvar1 ml_var ml_var1
Multi-level variance-covariance family of psychonetrics models	ml_corr ml_ggm ml_varcov
Stepwise model search	modelsearch
Network Analysis 2020 Self-Report Data	NA2020
Lag-1 panel vector autoregression family of psychonetrics models	panelgvar panelvar
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
Plot the networks of a psychonetrics model	plot.psychonetrics
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 summary,psychonetrics-method
Random intercept cross-lagged panel models and networks	print.ri_clpm_search ri_clpm ri_clpm_search ri_clpm_stationary ri_clpn ri_clpn_search ri_clpn_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	tsdlvm 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