gemma2
GEMMA Multivariate Linear Mixed Model
Description
Fits a multivariate linear mixed effects model that uses a polygenic term, after Zhou & Stephens (2014) (<https://www.nature.com/articles/nmeth.2848>). Of particular interest is the estimation of variance components with restricted maximum likelihood (REML) methods. Genome-wide efficient mixed-model association (GEMMA), as implemented in the package 'gemma2', uses an expectation-maximization algorithm for variance components inference for use in quantitative trait locus studies.
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CRAN Check Status
Show all 13 flavors
| Flavor | Status |
|---|---|
| r-devel-linux-x86_64-debian-clang | OK |
| r-devel-linux-x86_64-debian-gcc | OK |
| r-devel-linux-x86_64-fedora-clang | NOTE |
| r-devel-linux-x86_64-fedora-gcc | NOTE |
| r-devel-windows-x86_64 | OK |
| r-oldrel-macos-arm64 | OK |
| r-oldrel-macos-x86_64 | OK |
| r-oldrel-windows-x86_64 | OK |
| r-patched-linux-x86_64 | OK |
| r-release-linux-x86_64 | OK |
| r-release-macos-arm64 | OK |
| r-release-macos-x86_64 | OK |
| r-release-windows-x86_64 | OK |
Check details (2 non-OK)
dependencies in R code
Namespace in Imports field not imported from: ‘methods’ All declared Imports should be used.
dependencies in R code
Namespace in Imports field not imported from: ‘methods’ All declared Imports should be used.
Check History
NOTE 11 OK · 2 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE Jun 9, 2026
dependencies in R code
Namespace in Imports field not imported from: ‘methods’ All declared Imports should be used.
dependencies in R code
Namespace in Imports field not imported from: ‘methods’ All declared Imports should be used.
ERROR 10 OK · 2 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE Jun 8, 2026
re-building of vignette outputs
Error(s) in re-building vignettes: ... --- re-building ‘compare-with-GEMMAv096.Rmd’ using rmarkdown Warning in file(con, "w") : cannot open file '/tmp/RtmpRrhDsc/rmarkdown-str139ae879434502.html': No space left on device Error: processing vignett ...[truncated]... EMMAv096.Rmd' failed with diagnostics: cannot open the connection --- failed re-building ‘compare-with-GEMMAv096.Rmd’ SUMMARY: processing the following file failed: ‘compare-with-GEMMAv096.Rmd’ Error: Vignette re-building failed. Execution halted
dependencies in R code
Namespace in Imports field not imported from: ‘methods’ All declared Imports should be used.
dependencies in R code
Namespace in Imports field not imported from: ‘methods’ All declared Imports should be used.
NOTE 9 OK · 5 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE Mar 10, 2026
dependencies in R code
Namespace in Imports field not imported from: ‘methods’ All declared Imports should be used.
dependencies in R code
Namespace in Imports field not imported from: ‘methods’ All declared Imports should be used.
LazyData
'LazyData' is specified without a 'data' directory
LazyData
'LazyData' is specified without a 'data' directory
LazyData
'LazyData' is specified without a 'data' directory