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networktree

Recursive partitioning (tree models) of psychometric networks

https://github.com/paytonjjones/networktree

Science Score: 23.0%

This score indicates how likely this project is to be science-related based on various indicators:

  • ○
    CITATION.cff file
  • ○
    codemeta.json file
  • ○
    .zenodo.json file
  • ✓
    DOI references
    Found 3 DOI reference(s) in README
  • ○
    Academic publication links
  • ✓
    Committers with academic emails
    4 of 6 committers (66.7%) from academic institutions
  • ○
    Institutional organization owner
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    Scientific vocabulary similarity
    Low similarity (12.8%) to scientific vocabulary

Keywords

network-analysis psychometrics tree-models
Last synced: 6 months ago · JSON representation

Repository

Recursive partitioning (tree models) of psychometric networks

Basic Info
Statistics
  • Stars: 13
  • Watchers: 1
  • Forks: 2
  • Open Issues: 1
  • Releases: 0
Topics
network-analysis psychometrics tree-models
Created over 7 years ago · Last pushed over 3 years ago
Metadata Files
Readme

README.Rmd 

---
output: github_document
---



```{r, include = FALSE}
knitr::opts_chunk$set(
  fig.path = "man/figures/README-"
)

require(networktree)
require(qgraph)
require(grid)
data("dass")
```

Psychometric networks provide information about the statistical relationships between observed variables. ***networktree*** is a package for partitioning psychometric networks to reveal heterogeneity. 

Consider a depression network where the nodes represent different symptoms: 

```{r, echo = FALSE, fig.height=4, fig.width=4}


# depression items from dass 21
nodeVars <- c("dass3_D", "dass42_D", "dass10_D", "dass13_D", "dass31_D", "dass17_D", "dass38_D")
dNames <- c("anhedonia", "initiative","lookforward","sad","unenthused","worthless","meaningless")
colnames(dass)[match(nodeVars, colnames(dass))] <- dNames

pcorDassDep <- qgraph(cor(dass[,dNames]), graph="pcor", labels=dNames, vsize=15, layout="spring", label.norm="OOOOO")
```

***networktree*** can be used to identify if this depression network is heterogeneous depending on the sample characteristics. For instance, we can test whether the network differs depending on participants' marital status.

```{r, echo = FALSE}
tree1 <- networktree(nodevars=dass[,dNames], splitvars=dass[,"married",drop=F])
plot(tree1, transform="pcor",
     labels=dNames, vsize=15, layout=pcorDassDep$layout, label.norm="OOOOO",
     partyargs=list(gp=gpar(fontsize=10)))
```

We can explore multiple characteristics at once, with the more important splitting characteristics being prioritized in the tree model. Continuous partitioning variables (e.g., age) can be included, and ***networktree*** will automatically search for the ideal split point(s).

```{r, echo = FALSE, fig.width=10, fig.height=6.5}
tree_complex <- networktree(nodevars=dass[,dNames], splitvars=dass[,c("age", "race"),drop=F])
plot(tree_complex,transform="pcor",
     labels=dNames, vsize=15, layout=pcorDassDep$layout, label.norm="OOOOO",
     partyargs=list(gp=gpar(fontsize=7)))
```

Resources:

* [Home Page](https://paytonjjones.github.io/networktree/)
* [Getting Started - Tutorial](https://paytonjjones.github.io/networktree/index.html) 
* [CRAN documentation](https://cran.r-project.org/web/packages/networktree/index.html)  
* [Example application](https://paytonjjones.github.io/networktree/articles/returns.html)
* [Published paper](https://rdcu.be/b9Kyw) for a more advanced look. 

To cite ***networktree***, use:

Jones, P.J., Mair, P., Simon, T., & Zeileis, A. (2020). Network trees: A method for recursively partitioning covariance structures. _Psychometrika_, **85**(4), 926-945. [doi:10.1007/s11336-020-09731-4](https://doi.org/10.1007/s11336-020-09731-4)

Owner

  • Name: Payton J. Jones
  • Login: paytonjjones
  • Kind: user
  • Location: Issaquah, WA
  • Company: Pluralsight

Senior Data Scientist at Pluralsight

GitHub Events

Total
Last Year

Committers

Last synced: over 2 years ago

All Time
  • Total Commits: 124
  • Total Committers: 6
  • Avg Commits per committer: 20.667
  • Development Distribution Score (DDS): 0.565
Past Year
  • Commits: 0
  • Committers: 0
  • Avg Commits per committer: 0.0
  • Development Distribution Score (DDS): 0.0
Top Committers
Name Email Commits
Payton J. Jones p****s@g****m 54
Thorsten Simon T****n@u****t 24
Thorsten Simon t****n@u****t 19
Payton J. Jones p****s@g****u 16
Achim Zeileis A****s@u****t 7
Payton J. Jones p****s@p****m 4
Committer Domains (Top 20 + Academic)
uibk.ac.at: 3 pluralsight.com: 1 g.harvard.edu: 1

Issues and Pull Requests

Last synced: 6 months ago

All Time
  • Total issues: 7
  • Total pull requests: 0
  • Average time to close issues: 8 months
  • Average time to close pull requests: N/A
  • Total issue authors: 5
  • Total pull request authors: 0
  • Average comments per issue: 1.0
  • Average comments per pull request: 0
  • Merged pull requests: 0
  • Bot issues: 0
  • Bot pull requests: 0
Past Year
  • Issues: 0
  • Pull requests: 0
  • Average time to close issues: N/A
  • Average time to close pull requests: N/A
  • Issue authors: 0
  • Pull request authors: 0
  • Average comments per issue: 0
  • Average comments per pull request: 0
  • Merged pull requests: 0
  • Bot issues: 0
  • Bot pull requests: 0
View more stats
Top Authors
Issue Authors
  • meteosimon (3)
  • parsifal9 (1)
  • desphua (1)
  • emstruong (1)
  • lbros02 (1)
Pull Request Authors
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Packages

  • Total packages: 1
  • Total downloads:
    • cran 317 last-month
  • Total docker downloads: 41,971
  • Total dependent packages: 0
  • Total dependent repositories: 0
  • Total versions: 5
  • Total maintainers: 1
cran.r-project.org: networktree

Recursive Partitioning of Network Models

  • Versions: 5
  • Dependent Packages: 0
  • Dependent Repositories: 0
  • Downloads: 317 Last month
  • Docker Downloads: 41,971
Rankings
Stargazers count: 17.0%
Forks count: 21.9%
Average: 28.0%
Dependent packages count: 29.8%
Dependent repos count: 35.5%
Downloads: 35.9%
Maintainers (1)
paytonjjones@gmail.com
Last synced: 6 months ago

Dependencies

DESCRIPTION cran
  • R >= 3.5.0 depends
  • Formula * imports
  • Matrix * imports
  • graphics * imports
  • grid * imports
  • gridBase * imports
  • mvtnorm * imports
  • partykit * imports
  • qgraph * imports
  • reshape2 * imports
  • stats * imports
  • utils * imports
  • R.rsp * suggests
  • fxregime * suggests
  • knitr * suggests
  • rmarkdown * suggests
  • testthat * suggests
  • zoo * suggests