Package: GGMnonreg 1.1.0

GGMnonreg: Non-Regularized Gaussian Graphical Models

Estimate non-regularized Gaussian graphical models, Ising models, and mixed graphical models. The current methods consist of multiple regression, a non-parametric bootstrap <doi:10.1080/00273171.2019.1575716>, and Fisher z transformed partial correlations <doi:10.1111/bmsp.12173>. Parameter uncertainty, predictability, and network replicability <doi:10.31234/osf.io/fb4sa> are also implemented.

Authors:Donald Williams [aut, cre]

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GGMnonreg.pdf |GGMnonreg.html✨
GGMnonreg/json (API)

# Install 'GGMnonreg' in R:
install.packages('GGMnonreg', repos = c('https://donaldrwilliams.r-universe.dev', 'https://cloud.r-project.org'))

Peer review:

Bug tracker:https://github.com/donaldrwilliams/ggmnonreg/issues

Datasets:
  • Sachs - Data: Sachs Network
  • asd_ocd - Data: Autism and Obssesive Compulsive Disorder
  • bfi - Data: 25 Personality items representing 5 factors
  • csws - Data: Contingencies of Self-Worth Scale
  • depression_anxiety_t1 - Data: Depression and Anxiety
  • depression_anxiety_t2 - Data: Depression and Anxiety
  • gss - Data: 1994 General Social Survey
  • ifit - Data: ifit Intensive Longitudinal Data
  • iri - Data: Interpersonal Reactivity Index
  • ptsd - Data: Post-Traumatic Stress Disorder
  • ptsd_cor1 - Cor: Post-Traumatic Stress Disorder
  • ptsd_cor2 - Cor: Post-Traumatic Stress Disorder
  • ptsd_cor3 - Cor: Post-Traumatic Stress Disorder
  • ptsd_cor4 - Cor: Post-Traumatic Stress Disorder
  • rsa - Data: Resilience Scale of Adults
  • tas - Data: Toronto Alexithymia Scale
  • women_math - Data: Women and Mathematics

On CRAN:

3.48 score 6 stars 4 scripts 703 downloads 14 exports 76 dependencies

Last updated 3 years agofrom:13a554abb7. Checks:OK: 1 NOTE: 6. Indexed: yes.

TargetResultDate
Doc / VignettesOKOct 12 2024
R-4.5-winNOTEOct 12 2024
R-4.5-linuxNOTEOct 12 2024
R-4.4-winNOTEOct 12 2024
R-4.4-macNOTEOct 12 2024
R-4.3-winNOTEOct 12 2024
R-4.3-macNOTEOct 12 2024

Exports:constrainedeipenrfisher_r_to_zfisher_z_to_rgen_netget_graphggm_compareggm_inferenceggm_searchising_searchmixed_searchplot_enrpredictability

Dependencies:bestglmclicodacodetoolscolorspacecorpcorcpp11crayondoParalleldplyrfansifarverforcatsforeachgenericsGGallyGGMncvggplot2ggstatsglassoFastglmnetglueGPArotationgrpreggtablehmsisobanditeratorslabelinglatticeleapslifecyclemagrittrMASSmathjaxrMatrixmgcvmnormtmunsellnetworknlmenumDerivpatchworkpbapplypillarpkgconfigplsplyrpoibinprettyunitsprogresspsychpurrrR6rbibutilsRColorBrewerRcppRcppArmadilloRcppEigenRdpackreshaperlangscalesshapesnastatnet.commonstringistringrsurvivaltibbletidyrtidyselectutf8vctrsviridisLitewithr

Readme and manuals

Help Manual

Help pageTopics
GGMnonreg: Non-Regularized Gaussian Graphical ModelsGGMnonreg-package
Data: Autism and Obssesive Compulsive Disorderasd_ocd
Data: 25 Personality items representing 5 factorsbfi
Extract Confidence Intervals from 'ggm_inference' Objectsconfint.ggm_inference
Precision Matrix with Known Graphconstrained
Data: Contingencies of Self-Worth Scale (CSWS)csws
Data: Depression and Anxiety (Time 1)depression_anxiety_t1
Data: Depression and Anxiety (Time 2)depression_anxiety_t2
Edge Inclusion "Probability"eip
Expected Network Replicabilityenr
Fisher Z Transformationfisher_r_to_z
Fisher Z Back Transformationfisher_z_to_r
Simulate a Partial Correlation Matrixgen_net
Get Graphget_graph
Compare Gaussian Graphical Modelsggm_compare
Gaussian graphical model: statistical inferenceggm_inference
Gaussian graphical model: automated searchggm_search
Data: 1994 General Social Surveygss
Data: ifit Intensive Longitudinal Dataifit
Data: Interpersonal Reactivity Index (IRI)iri
Ising: automated searchising_search
Mixed Graphical Model: automated searchmixed_search
Plot 'enr' Objectsplot_enr
Network Plot for 'graph' Objectsplot.ggmnonreg
Network Predictability (R2)predictability
Print 'ggmnonreg' Objectprint.ggmnonreg
Data: Post-Traumatic Stress Disorderptsd
Cor: Post-Traumatic Stress Disorder (Sample # 1)ptsd_cor1
Cor: Post-Traumatic Stress Disorder (Sample # 2)ptsd_cor2
Cor: Post-Traumatic Stress Disorder (Sample # 3)ptsd_cor3
Cor: Post-Traumatic Stress Disorder (Sample # 4)ptsd_cor4
Data: Resilience Scale of Adults (RSA)rsa
Data: Sachs NetworkSachs
Data: Toronto Alexithymia Scale (TAS)tas
Data: Women and Mathematicswomen_math