Description
Three methods to calculate R2 for models with correlated errors, including Phylogenetic GLS, Phylogenetic Logistic Regression, Linear Mixed Models (LMMs), and Generalized Linear Mixed Models (GLMMs). See details in Ives 2018 <doi:10.1093/sysbio/syy060>.
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14
NOTE
Show all 14 flavors
| Flavor | Status |
|---|---|
| r-devel-linux-x86_64-debian-clang | NOTE |
| r-devel-linux-x86_64-debian-gcc | NOTE |
| r-devel-linux-x86_64-fedora-clang | NOTE |
| r-devel-linux-x86_64-fedora-gcc | NOTE |
| r-devel-macos-arm64 | NOTE |
| r-devel-windows-x86_64 | NOTE |
| r-oldrel-macos-arm64 | NOTE |
| r-oldrel-macos-x86_64 | NOTE |
| r-oldrel-windows-x86_64 | NOTE |
| r-patched-linux-x86_64 | NOTE |
| r-release-linux-x86_64 | NOTE |
| r-release-macos-arm64 | NOTE |
| r-release-macos-x86_64 | NOTE |
| r-release-windows-x86_64 | NOTE |
Check details (14 non-OK)
NOTE
r-devel-linux-x86_64-debian-clang
Rd files
checkRd: (-1) R2_lik.Rd:37: Lost braces; missing escapes or markup?
37 | \code{R2_lik()} is also computed for LMMs and GLMMs in the {MuMIn} package.
| ^
checkRd: (-1) R2_pred.Rd:32: Lost braces; missing escapes or markup?
32 | Note that the version of \code{binaryPGLMM()} in the package ape is replaced by a version contained within {rr2} that outputs all of the required information for the calculation of R2_resid.
| ^
checkRd: (-1) R2_resid.Rd:69: Lost braces; missing escapes or markup?
69 | Note that the version of \code{binaryPGLMM()} in the package ape is replaced by a version contained within {rr2} that outputs all of the required information for the calculation of \code{R2_resid()}
| ^
NOTE
r-devel-linux-x86_64-debian-gcc
Rd files
checkRd: (-1) R2_lik.Rd:37: Lost braces; missing escapes or markup?
37 | \code{R2_lik()} is also computed for LMMs and GLMMs in the {MuMIn} package.
| ^
checkRd: (-1) R2_pred.Rd:32: Lost braces; missing escapes or markup?
32 | Note that the version of \code{binaryPGLMM()} in the package ape is replaced by a version contained within {rr2} that outputs all of the required information for the calculation of R2_resid.
| ^
checkRd: (-1) R2_resid.Rd:69: Lost braces; missing escapes or markup?
69 | Note that the version of \code{binaryPGLMM()} in the package ape is replaced by a version contained within {rr2} that outputs all of the required information for the calculation of \code{R2_resid()}
| ^
NOTE
r-devel-linux-x86_64-fedora-clang
Rd files
checkRd: (-1) R2_lik.Rd:37: Lost braces; missing escapes or markup?
37 | \code{R2_lik()} is also computed for LMMs and GLMMs in the {MuMIn} package.
| ^
checkRd: (-1) R2_pred.Rd:32: Lost braces; missing escapes or markup?
32 | Note that the version of \code{binaryPGLMM()} in the package ape is replaced by a version contained within {rr2} that outputs all of the required information for the calculation of R2_resid.
| ^
checkRd: (-1) R2_resid.Rd:69: Lost braces; missing escapes or markup?
69 | Note that the version of \code{binaryPGLMM()} in the package ape is replaced by a version contained within {rr2} that outputs all of the required information for the calculation of \code{R2_resid()}
| ^
NOTE
r-devel-linux-x86_64-fedora-gcc
Rd files
checkRd: (-1) R2_lik.Rd:37: Lost braces; missing escapes or markup?
37 | \code{R2_lik()} is also computed for LMMs and GLMMs in the {MuMIn} package.
| ^
checkRd: (-1) R2_pred.Rd:32: Lost braces; missing escapes or markup?
32 | Note that the version of \code{binaryPGLMM()} in the package ape is replaced by a version contained within {rr2} that outputs all of the required information for the calculation of R2_resid.
| ^
checkRd: (-1) R2_resid.Rd:69: Lost braces; missing escapes or markup?
69 | Note that the version of \code{binaryPGLMM()} in the package ape is replaced by a version contained within {rr2} that outputs all of the required information for the calculation of \code{R2_resid()}
| ^
NOTE
r-devel-macos-arm64
Rd files
checkRd: (-1) R2_lik.Rd:37: Lost braces; missing escapes or markup?
37 | \code{R2_lik()} is also computed for LMMs and GLMMs in the {MuMIn} package.
| ^
checkRd: (-1) R2_pred.Rd:32: Lost braces; missing escapes or markup?
32 | Note that the version of \code{binaryPGLMM()} in the package ape is replaced by a version contained within {rr2} that outputs all of the required information for the calculation of R2_resid.
| ^
checkRd: (-1) R2_resid.Rd:69: Lost braces; missing escapes or markup?
69 | Note that the version of \code{binaryPGLMM()} in the package ape is replaced by a version contained within {rr2} that outputs all of the required information for the calculation of \code{R2_resid()}
| ^
NOTE
r-devel-windows-x86_64
Rd files
checkRd: (-1) R2_lik.Rd:37: Lost braces; missing escapes or markup?
37 | \code{R2_lik()} is also computed for LMMs and GLMMs in the {MuMIn} package.
| ^
checkRd: (-1) R2_pred.Rd:32: Lost braces; missing escapes or markup?
32 | Note that the version of \code{binaryPGLMM()} in the package ape is replaced by a version contained within {rr2} that outputs all of the required information for the calculation of R2_resid.
| ^
checkRd: (-1) R2_resid.Rd:69: Lost braces; missing escapes or markup?
69 | Note that the version of \code{binaryPGLMM()} in the package ape is replaced by a version contained within {rr2} that outputs all of the required information for the calculation of \code{R2_resid()}
| ^
NOTE
r-oldrel-macos-arm64
Rd files
checkRd: (-1) R2_lik.Rd:37: Lost braces; missing escapes or markup?
37 | \code{R2_lik()} is also computed for LMMs and GLMMs in the {MuMIn} package.
| ^
checkRd: (-1) R2_pred.Rd:32: Lost braces; missing escapes or markup?
32 | Note that the version of \code{binaryPGLMM()} in the package ape is replaced by a version contained within {rr2} that outputs all of the required information for the calculation of R2_resid.
| ^
checkRd: (-1) R2_resid.Rd:69: Lost braces; missing escapes or markup?
69 | Note that the version of \code{binaryPGLMM()} in the package ape is replaced by a version contained within {rr2} that outputs all of the required information for the calculation of \code{R2_resid()}
| ^
NOTE
r-oldrel-macos-x86_64
Rd files
checkRd: (-1) R2_lik.Rd:37: Lost braces; missing escapes or markup?
37 | \code{R2_lik()} is also computed for LMMs and GLMMs in the {MuMIn} package.
| ^
checkRd: (-1) R2_pred.Rd:32: Lost braces; missing escapes or markup?
32 | Note that the version of \code{binaryPGLMM()} in the package ape is replaced by a version contained within {rr2} that outputs all of the required information for the calculation of R2_resid.
| ^
checkRd: (-1) R2_resid.Rd:69: Lost braces; missing escapes or markup?
69 | Note that the version of \code{binaryPGLMM()} in the package ape is replaced by a version contained within {rr2} that outputs all of the required information for the calculation of \code{R2_resid()}
| ^
NOTE
r-oldrel-windows-x86_64
Rd files
checkRd: (-1) R2_lik.Rd:37: Lost braces; missing escapes or markup?
37 | \code{R2_lik()} is also computed for LMMs and GLMMs in the {MuMIn} package.
| ^
checkRd: (-1) R2_pred.Rd:32: Lost braces; missing escapes or markup?
32 | Note that the version of \code{binaryPGLMM()} in the package ape is replaced by a version contained within {rr2} that outputs all of the required information for the calculation of R2_resid.
| ^
checkRd: (-1) R2_resid.Rd:69: Lost braces; missing escapes or markup?
69 | Note that the version of \code{binaryPGLMM()} in the package ape is replaced by a version contained within {rr2} that outputs all of the required information for the calculation of \code{R2_resid()}
| ^
NOTE
r-patched-linux-x86_64
Rd files
checkRd: (-1) R2_lik.Rd:37: Lost braces; missing escapes or markup?
37 | \code{R2_lik()} is also computed for LMMs and GLMMs in the {MuMIn} package.
| ^
checkRd: (-1) R2_pred.Rd:32: Lost braces; missing escapes or markup?
32 | Note that the version of \code{binaryPGLMM()} in the package ape is replaced by a version contained within {rr2} that outputs all of the required information for the calculation of R2_resid.
| ^
checkRd: (-1) R2_resid.Rd:69: Lost braces; missing escapes or markup?
69 | Note that the version of \code{binaryPGLMM()} in the package ape is replaced by a version contained within {rr2} that outputs all of the required information for the calculation of \code{R2_resid()}
| ^
NOTE
r-release-linux-x86_64
Rd files
checkRd: (-1) R2_lik.Rd:37: Lost braces; missing escapes or markup?
37 | \code{R2_lik()} is also computed for LMMs and GLMMs in the {MuMIn} package.
| ^
checkRd: (-1) R2_pred.Rd:32: Lost braces; missing escapes or markup?
32 | Note that the version of \code{binaryPGLMM()} in the package ape is replaced by a version contained within {rr2} that outputs all of the required information for the calculation of R2_resid.
| ^
checkRd: (-1) R2_resid.Rd:69: Lost braces; missing escapes or markup?
69 | Note that the version of \code{binaryPGLMM()} in the package ape is replaced by a version contained within {rr2} that outputs all of the required information for the calculation of \code{R2_resid()}
| ^
NOTE
r-release-macos-arm64
Rd files
checkRd: (-1) R2_lik.Rd:37: Lost braces; missing escapes or markup?
37 | \code{R2_lik()} is also computed for LMMs and GLMMs in the {MuMIn} package.
| ^
checkRd: (-1) R2_pred.Rd:32: Lost braces; missing escapes or markup?
32 | Note that the version of \code{binaryPGLMM()} in the package ape is replaced by a version contained within {rr2} that outputs all of the required information for the calculation of R2_resid.
| ^
checkRd: (-1) R2_resid.Rd:69: Lost braces; missing escapes or markup?
69 | Note that the version of \code{binaryPGLMM()} in the package ape is replaced by a version contained within {rr2} that outputs all of the required information for the calculation of \code{R2_resid()}
| ^
NOTE
r-release-macos-x86_64
Rd files
checkRd: (-1) R2_lik.Rd:37: Lost braces; missing escapes or markup?
37 | \code{R2_lik()} is also computed for LMMs and GLMMs in the {MuMIn} package.
| ^
checkRd: (-1) R2_pred.Rd:32: Lost braces; missing escapes or markup?
32 | Note that the version of \code{binaryPGLMM()} in the package ape is replaced by a version contained within {rr2} that outputs all of the required information for the calculation of R2_resid.
| ^
checkRd: (-1) R2_resid.Rd:69: Lost braces; missing escapes or markup?
69 | Note that the version of \code{binaryPGLMM()} in the package ape is replaced by a version contained within {rr2} that outputs all of the required information for the calculation of \code{R2_resid()}
| ^
NOTE
r-release-windows-x86_64
Rd files
checkRd: (-1) R2_lik.Rd:37: Lost braces; missing escapes or markup?
37 | \code{R2_lik()} is also computed for LMMs and GLMMs in the {MuMIn} package.
| ^
checkRd: (-1) R2_pred.Rd:32: Lost braces; missing escapes or markup?
32 | Note that the version of \code{binaryPGLMM()} in the package ape is replaced by a version contained within {rr2} that outputs all of the required information for the calculation of R2_resid.
| ^
checkRd: (-1) R2_resid.Rd:69: Lost braces; missing escapes or markup?
69 | Note that the version of \code{binaryPGLMM()} in the package ape is replaced by a version contained within {rr2} that outputs all of the required information for the calculation of \code{R2_resid()}
| ^
Check History
NOTE 0 OK · 14 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE Mar 10, 2026
NOTE
r-devel-linux-x86_64-debian-clang
Rd files
checkRd: (-1) R2_lik.Rd:37: Lost braces; missing escapes or markup?
37 | \code{R2_lik()} is also computed for LMMs and GLMMs in the {MuMIn} package.
| ^
checkRd: (-1) R2_pred.Rd:32
...[truncated]...
s replaced by a version contained within {rr2} that outputs all of the required information for the calculation of \code{R2_resid()}
| ^
NOTE
r-devel-linux-x86_64-debian-gcc
Rd files
checkRd: (-1) R2_lik.Rd:37: Lost braces; missing escapes or markup?
37 | \code{R2_lik()} is also computed for LMMs and GLMMs in the {MuMIn} package.
| ^
checkRd: (-1) R2_pred.Rd:32
...[truncated]...
s replaced by a version contained within {rr2} that outputs all of the required information for the calculation of \code{R2_resid()}
| ^
NOTE
r-devel-linux-x86_64-fedora-clang
Rd files
checkRd: (-1) R2_lik.Rd:37: Lost braces; missing escapes or markup?
37 | \code{R2_lik()} is also computed for LMMs and GLMMs in the {MuMIn} package.
| ^
checkRd: (-1) R2_pred.Rd:32
...[truncated]...
s replaced by a version contained within {rr2} that outputs all of the required information for the calculation of \code{R2_resid()}
| ^
NOTE
r-devel-linux-x86_64-fedora-gcc
Rd files
checkRd: (-1) R2_lik.Rd:37: Lost braces; missing escapes or markup?
37 | \code{R2_lik()} is also computed for LMMs and GLMMs in the {MuMIn} package.
| ^
checkRd: (-1) R2_pred.Rd:32
...[truncated]...
s replaced by a version contained within {rr2} that outputs all of the required information for the calculation of \code{R2_resid()}
| ^
NOTE
r-devel-macos-arm64
Rd files
checkRd: (-1) R2_lik.Rd:37: Lost braces; missing escapes or markup?
37 | \code{R2_lik()} is also computed for LMMs and GLMMs in the {MuMIn} package.
| ^
checkRd: (-1) R2_pred.Rd:32
...[truncated]...
s replaced by a version contained within {rr2} that outputs all of the required information for the calculation of \code{R2_resid()}
| ^
NOTE
r-devel-windows-x86_64
Rd files
checkRd: (-1) R2_lik.Rd:37: Lost braces; missing escapes or markup?
37 | \code{R2_lik()} is also computed for LMMs and GLMMs in the {MuMIn} package.
| ^
checkRd: (-1) R2_pred.Rd:32
...[truncated]...
s replaced by a version contained within {rr2} that outputs all of the required information for the calculation of \code{R2_resid()}
| ^
NOTE
r-patched-linux-x86_64
Rd files
checkRd: (-1) R2_lik.Rd:37: Lost braces; missing escapes or markup?
37 | \code{R2_lik()} is also computed for LMMs and GLMMs in the {MuMIn} package.
| ^
checkRd: (-1) R2_pred.Rd:32
...[truncated]...
s replaced by a version contained within {rr2} that outputs all of the required information for the calculation of \code{R2_resid()}
| ^
NOTE
r-release-linux-x86_64
Rd files
checkRd: (-1) R2_lik.Rd:37: Lost braces; missing escapes or markup?
37 | \code{R2_lik()} is also computed for LMMs and GLMMs in the {MuMIn} package.
| ^
checkRd: (-1) R2_pred.Rd:32
...[truncated]...
s replaced by a version contained within {rr2} that outputs all of the required information for the calculation of \code{R2_resid()}
| ^
NOTE
r-release-macos-arm64
Rd files
checkRd: (-1) R2_lik.Rd:37: Lost braces; missing escapes or markup?
37 | \code{R2_lik()} is also computed for LMMs and GLMMs in the {MuMIn} package.
| ^
checkRd: (-1) R2_pred.Rd:32
...[truncated]...
s replaced by a version contained within {rr2} that outputs all of the required information for the calculation of \code{R2_resid()}
| ^
NOTE
r-release-macos-x86_64
Rd files
checkRd: (-1) R2_lik.Rd:37: Lost braces; missing escapes or markup?
37 | \code{R2_lik()} is also computed for LMMs and GLMMs in the {MuMIn} package.
| ^
checkRd: (-1) R2_pred.Rd:32
...[truncated]...
s replaced by a version contained within {rr2} that outputs all of the required information for the calculation of \code{R2_resid()}
| ^
NOTE
r-release-windows-x86_64
Rd files
checkRd: (-1) R2_lik.Rd:37: Lost braces; missing escapes or markup?
37 | \code{R2_lik()} is also computed for LMMs and GLMMs in the {MuMIn} package.
| ^
checkRd: (-1) R2_pred.Rd:32
...[truncated]...
s replaced by a version contained within {rr2} that outputs all of the required information for the calculation of \code{R2_resid()}
| ^
NOTE
r-oldrel-macos-arm64
Rd files
checkRd: (-1) R2_lik.Rd:37: Lost braces; missing escapes or markup?
37 | \code{R2_lik()} is also computed for LMMs and GLMMs in the {MuMIn} package.
| ^
checkRd: (-1) R2_pred.Rd:32
...[truncated]...
s replaced by a version contained within {rr2} that outputs all of the required information for the calculation of \code{R2_resid()}
| ^
NOTE
r-oldrel-macos-x86_64
Rd files
checkRd: (-1) R2_lik.Rd:37: Lost braces; missing escapes or markup?
37 | \code{R2_lik()} is also computed for LMMs and GLMMs in the {MuMIn} package.
| ^
checkRd: (-1) R2_pred.Rd:32
...[truncated]...
s replaced by a version contained within {rr2} that outputs all of the required information for the calculation of \code{R2_resid()}
| ^
NOTE
r-oldrel-windows-x86_64
Rd files
checkRd: (-1) R2_lik.Rd:37: Lost braces; missing escapes or markup?
37 | \code{R2_lik()} is also computed for LMMs and GLMMs in the {MuMIn} package.
| ^
checkRd: (-1) R2_pred.Rd:32
...[truncated]...
s replaced by a version contained within {rr2} that outputs all of the required information for the calculation of \code{R2_resid()}
| ^