Approaches to Detect Unidimensional Communities
Source:R/community.unidimensional.R
community.unidimensional.Rd
A function to apply several approaches to detect a unidimensional community in
networks. There have many different approaches recently such as expanding
the correlation matrix to have orthogonal correlations ("expand"
),
applying the Leading Eigenvalue community detection algorithm
cluster_leading_eigen
to the correlation matrix
("LE"
), and applying the Louvain community detection algorithm
cluster_louvain
to the correlation matrix ("louvain"
).
Not necessarily intended for individual use – it's better to use EGA
Arguments
- data
Matrix or data frame. Should consist only of variables that are desired to be in analysis
- n
Numeric (length = 1). Sample size if
data
provided is a correlation matrix- corr
Character (length = 1). Method to compute correlations. Defaults to
"auto"
. Available options:"auto"
— Automatically computes appropriate correlations for the data using Pearson's for continuous, polychoric for ordinal, tetrachoric for binary, and polyserial/biserial for ordinal/binary with continuous. To change the number of categories that are considered ordinal, useordinal.categories
(seepolychoric.matrix
for more details)"cor_auto"
— Usescor_auto
to compute correlations. Arguments can be passed along to the function"pearson"
— Pearson's correlation is computed for all variables regardless of categories"spearman"
— Spearman's rank-order correlation is computed for all variables regardless of categories
For other similarity measures, compute them first and input them into
data
with the sample size (n
)- na.data
Character (length = 1). How should missing data be handled? Defaults to
"pairwise"
. Available options:"pairwise"
— Computes correlation for all available cases between two variables"listwise"
— Computes correlation for all complete cases in the dataset
- model
Character (length = 1). Defaults to
"glasso"
. Available options:"BGGM"
— Computes the Bayesian Gaussian Graphical Model. Set argumentordinal.categories
to determine levels allowed for a variable to be considered ordinal. See?BGGM::estimate
for more details"glasso"
— Computes the GLASSO with EBIC model selection. SeeEBICglasso.qgraph
for more details"TMFG"
— Computes the TMFG method. SeeTMFG
for more details
- uni.method
Character (length = 1). What unidimensionality method should be used? Defaults to
"louvain"
. Available options:"expand"
— Expands the correlation matrix with four variables correlated 0.50. If number of dimension returns 2 or less in check, then the data are unidimensional; otherwise, regular EGA with no matrix expansion is used. This method was used in the Golino et al.'s (2020) Psychological Methods simulation"LE"
— Applies the Leading Eigenvector algorithm (cluster_leading_eigen
) on the empirical correlation matrix. If the number of dimensions is 1, then the Leading Eigenvector solution is used; otherwise, regular EGA is used. This method was used in the Christensen et al.'s (2023) Behavior Research Methods simulation"louvain"
— Applies the Louvain algorithm (cluster_louvain
) on the empirical correlation matrix. If the number of dimensions is 1, then the Louvain solution is used; otherwise, regular EGA is used. This method was validated Christensen's (2022) PsyArXiv simulation. Consensus clustering can be used by specifying either"consensus.method"
or"consensus.iter"
- verbose
Boolean. Whether messages and (insignificant) warnings should be output. Defaults to
FALSE
(silent calls). Set toTRUE
to see all messages and warnings for every function call- ...
Additional arguments to be passed on to
auto.correlate
,network.estimation
,community.consensus
, andcommunity.detection
Value
Returns the memberships of the community detection algorithm. The memberships will output regardless of whether the network is unidimensional
References
Expand approach
Golino, H., Shi, D., Christensen, A. P., Garrido, L. E., Nieto, M. D., Sadana, R., Thiyagarajan, J. A., & Martinez-Molina, A. (2020).
Investigating the performance of exploratory graph analysis and traditional techniques to identify the number of latent factors:
A simulation and tutorial.
Psychological Methods, 25, 292-320.
Leading Eigenvector approach
Christensen, A. P., Garrido, L. E., Guerra-Pena, K., & Golino, H. (2023).
Comparing community detection algorithms in psychometric networks: A Monte Carlo simulation.
Behavior Research Methods.
Louvain approach
Christensen, A. P. (2023).
Unidimensional community detection: A Monte Carlo simulation, grid search, and comparison.
PsyArXiv.
Author
Hudson Golino <hfg9s at virginia.edu> and Alexander P. Christensen <alexpaulchristensen@gmail.com>
Examples
# Load data
wmt <- wmt2[,7:24]
# Louvain with Consensus Clustering (default)
community.unidimensional(wmt)
#> Algorithm: Louvain
#>
#> Number of communities: 2
#>
#> wmt1 wmt2 wmt3 wmt4 wmt5 wmt6 wmt7 wmt8 wmt9 wmt10 wmt11 wmt12 wmt13
#> 1 1 1 1 1 2 2 2 2 1 2 2 2
#> wmt14 wmt15 wmt16 wmt17 wmt18
#> 2 2 2 2 2
# Leading Eigenvector
community.unidimensional(wmt, uni.method = "LE")
#> Algorithm: Leading Eigenvector
#>
#> Number of communities: 2
#>
#> wmt1 wmt2 wmt3 wmt4 wmt5 wmt6 wmt7 wmt8 wmt9 wmt10 wmt11 wmt12 wmt13
#> 1 1 1 1 1 1 2 2 2 1 2 2 2
#> wmt14 wmt15 wmt16 wmt17 wmt18
#> 2 2 2 2 2
# Expand
community.unidimensional(wmt, uni.method = "expand")
#> wmt1 wmt2 wmt3 wmt4 wmt5 wmt6 wmt7 wmt8 wmt9 wmt10 wmt11 wmt12 wmt13
#> 1 1 1 1 1 2 2 2 2 2 2 2 2
#> wmt14 wmt15 wmt16 wmt17 wmt18
#> 2 2 2 2 2