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The goal of the Mighty Metrika Interface to Cluster Adjusted t-Statistics (‘mmiCATs’) R package is to provide ‘shiny’ web applications for CATs and to provide research tools for investigating when CATs models should be preferred over other statistical models used for cluster adjustment.
The implementations of CATs in ‘mmiCATs’ is based on the cluster.im.glm() function from the R package ‘clusterSEs’. For more information on CATs see Esarey and Menger (2019).
You can install the released version of ‘mmiCATs’ from CRAN:
install.packages("mmiCATs")You can install the development version of ‘mmiCATs’ like so:
# install.packages("devtools")
devtools::install_github("mightymetrika/mmiCATs")Load the ‘mmiCATs’ package and call the mmiCATs() function to launch a ‘shiny’ web application which allows you to run the clusterSEs::cluster.im.glm() function on a csv dataset:
library(mmiCATs)mmiCATs()R packages such as ‘robust’ and ‘robustbase’ have functions which allow users to run robust alternatives to stats::lm() and stats::glm(). The ‘mmiCATs’ package has the functions cluster_im_lmRob() and cluster_im_glmRob() which take the basic algorithm used in clusterSEs::cluster.im.glm() but swaps out stats::glm() for a robust alternative. In the case of cluster_im_lmRob() either robust::lmRob() or robustbase::lmrob() get swapped in while in the case of cluster_im_glmRob() either robust::glmRob() or robustbase::glmrob() get swapped in. The example below shows some simple results comparing the methods for linear models.
# Get common parameters
.form <- Sepal.Length ~ Petal.Length + Petal.Width
.clust <- ~ Species
# clusterSEs::cluster.im.glm()
glmout <- stats::glm(.form,
family = "gaussian",
data = iris)
clusterSEs::cluster.im.glm(glmout, dat = iris, cluster = .clust,
return.vcv = TRUE)
#>
#> Cluster-Adjusted p-values:
#>
#> variable name cluster-adjusted p-value
#> (Intercept) 0.11
#> Petal.Length 0.055
#> Petal.Width 0.705
#>
#> Confidence Intervals (centered on cluster-averaged results):
#>
#> variable name CI lower CI higher
#> (Intercept) -1.42830072928431 6.54809830391216
#> Petal.Length -0.0384794641752815 1.59034415889221
#> Petal.Width -1.17723433639784 1.44337893950581
# robust::lmRob()
robustout <- robust::lmRob(.form, data = iris)
cluster_im_lmRob(robustout, .form, dat = iris, cluster = .clust,
engine = "robust", return.vcv = TRUE)
#> 00:00:00 left
#> 00:00:00 left
#> 00:00:00 left
#> $p.values
#> [,1]
#> (Intercept) 0.10328518
#> Petal.Length 0.02382271
#> Petal.Width 0.71362962
#>
#> $ci
#> CI lower CI higher
#> (Intercept) -1.2299791 6.133096
#> Petal.Length 0.2716887 1.406647
#> Petal.Width -1.1638474 1.417432
#>
#> $vcv.hat
#> (Intercept) Petal.Length Petal.Width
#> (Intercept) 2.1963785 -0.32092673 0.5416086
#> Petal.Length -0.3209267 0.05218536 -0.1060045
#> Petal.Width 0.5416086 -0.10600446 0.2699346
#>
#> $beta.bar
#> (Intercept) Petal.Length Petal.Width
#> 2.4515587 0.8391680 0.1267921
# robustbase::lmrob()
robustbaseout <- robustbase::lmrob(.form, data = iris)
cluster_im_lmRob(robustbaseout, .form, dat = iris, cluster = .clust,
engine = "robustbase", return.vcv = TRUE)
#> $p.values
#> [,1]
#> (Intercept) 0.10305707
#> Petal.Length 0.03924708
#> Petal.Width 0.72343658
#>
#> $ci
#> CI lower CI higher
#> (Intercept) -1.26209472 6.312871
#> Petal.Length 0.09756128 1.507929
#> Petal.Width -1.10924300 1.341017
#>
#> $vcv.hat
#> (Intercept) Petal.Length Petal.Width
#> (Intercept) 2.3246098 -0.41242678 0.5770706
#> Petal.Length -0.4124268 0.08058483 -0.1296058
#> Petal.Width 0.5770706 -0.12960576 0.2432276
#>
#> $beta.bar
#> (Intercept) Petal.Length Petal.Width
#> 2.5253884 0.8027451 0.1158868The simulation study in Esarey and Menger (2019) tested a few different methods for handling clustering. They found that a correctly specified mixed effects model tends to perform most efficiently; however, they found that CATs can outperform a mispecified mixed effects model. The pwr_func_lmer() function can be used to run a simulation where data is generated from a mixed effect model and results are compared between:
The models are compared on:
The following example shows a simulation where both a random intercept and random slope are specified and where two of the variables (x1 and x3) are correlated. The simulation is limited to 5 reps to minimize computation time. The main variable of interest is variable x1; as such, the comparison metrics will be with respect to x1.
pwr_func_lmer(betas = list("int" = 0, "x1" = -5, "x2" = 2, "x3" = 10),
dists = list("x1" = stats::rnorm,
"x2" = stats::rbinom,
"x3" = stats::rnorm),
distpar = list("x1" = list(mean = 0, sd = 1),
"x2" = list(size = 1, prob = 0.4),
"x3" = list(mean = 1, sd = 2)),
N = 50,
reps = 5,
alpha = 0.05,
var_intr = "x1",
grp = "ID",
mod = "out ~ x1 + x2 + x3 + (x3|ID)",
catsmod = "out ~ x1 + x2 + x3",
r_slope = "x3",
r_int = "int",
n_time = 100,
mean_i = 0,
var_i = 1,
mean_s = 0,
var_s = 1,
cov_is = 0,
mean_r = 0,
var_r = 1,
cor_mat = diag(2),
corvars = list(c("x1", "x3")))
#> model mean_coef rejection_rate rejection_rate_se rmse
#> 1 lme -5.007189 100 0 0.010810328
#> 2 ri -5.000001 100 0 0.013853265
#> 3 cats -5.006698 100 0 0.009592995
#> 4 cats_trunc -5.006698 100 0 0.009592995
#> 5 cats_robust -5.008836 100 0 0.013731247
#> 6 cats_robustbase -5.008159 100 0 0.011653423
#> rrmse coverage avg_ci_width success
#> 1 0.002162066 100 0.05650710 5
#> 2 0.002770653 100 0.08214456 5
#> 3 0.001918599 100 0.06106792 5
#> 4 0.001918599 100 0.06106792 5
#> 5 0.002746249 100 0.06670095 5
#> 6 0.002330685 100 0.06385641 5When summarizing simulation results, Esarey and Menger (2019) state, “in our simulations an accurate RE model of intra-cluster heterogeneity provides better performance than any cluster adjustment technique, but the cluster adjustment techniques perform better in the event of misspecification.” Of the cluster adjustment techniques, the summary also mentions that, “Our simulation analysis finds that CATs (based on the work of Ibragimov and Muller (2010)) are the best choice among the options we examine for correcting SEs for clustering in data sets with a small number of clusters.”
In practice, mixed effects models are often used to obtain cluster adjusted results. However, when the sample size is small, researchers often use a random intercept model (with no random slope) in order to obtain a model which is not too complex for the data. But if the true data generating process is consistent with a mixed effects model with a random slope then the random intercept model might be a misspecification.
CloseCATs is a card game where:
The game was designed to help users get a better understanding of when to prefer a CATs model over a random intercept model. To play the game, call the CloseCATs() function to launch the ‘shiny’ application.
CloseCATs()Esarey J, Menger A. Practical and Effective Approaches to Dealing With Clustered Data. Political Science Research and Methods. 2019;7(3):541-559. doi:10.1017/psrm.2017.42
Rustam Ibragimov & Ulrich K. Muller (2010) t-Statistic Based Correlation and Heterogeneity Robust Inference, Journal of Business & Economic Statistics, 28:4, 453-468, DOI: 10.1198/jbes.2009.08046
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