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GMMAT  

Generalized Linear Mixed Model Association Tests
View on CRAN: Click here


Download and install GMMAT package within the R console
Install from CRAN:
install.packages("GMMAT")

Install from Github:
library("remotes")
install_github("cran/GMMAT")

Install by package version:
library("remotes")
install_version("GMMAT", "1.4.2")



Attach the package and use:
library("GMMAT")
Maintained by
Han Chen
[Scholar Profile | Author Map]
First Published: 2023-04-14
Latest Update: 2023-11-17
Description:
Perform association tests using generalized linear mixed models (GLMMs) in genome-wide association studies (GWAS) and sequencing association studies. First, GMMAT fits a GLMM with covariate adjustment and random effects to account for population structure and familial or cryptic relatedness. For GWAS, GMMAT performs score tests for each genetic variant as proposed in Chen et al. (2016) . For candidate gene studies, GMMAT can also perform Wald tests to get the effect size estimate for each genetic variant. For rare variant analysis from sequencing association studies, GMMAT performs the variant Set Mixed Model Association Tests (SMMAT) as proposed in Chen et al. (2019) , including the burden test, the sequence kernel association test (SKAT), SKAT-O and an efficient hybrid test of the burden test and SKAT, based on user-defined variant sets.
How to cite:
Han Chen (2023). GMMAT: Generalized Linear Mixed Model Association Tests. R package version 1.4.2, https://cran.r-project.org/web/packages/GMMAT. Accessed 30 Apr. 2025.
Previous versions and publish date:
1.4.0 (2023-04-14 11:10), 1.4.1 (2023-10-07 09:10)
Other packages that cited GMMAT R package
View GMMAT citation profile
Other R packages that GMMAT depends, imports, suggests or enhances
Complete documentation for GMMAT
Functions, R codes and Examples using the GMMAT R package
Some associated functions: GMMAT-package . SMMAT.meta . SMMAT . example . glmm.score.meta . glmm.score . glmm.wald . glmmkin . 
Some associated R codes: SMMAT.R . glmm.score.R . glmm.wald.R . glmmkin.R .  Full GMMAT package functions and examples
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