limorhyde

Differential Analysis of Rhythmic Transcriptome Data

v1.0.3 · Jan 20, 2026 · GPL-2

Description

A flexible approach, inspired by cosinor regression, for differential analysis of rhythmic transcriptome data. See Singer and Hughey (2018) <doi:10.1177/0748730418813785>.

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CRAN Check Status

3 ERROR

11 OK

Show all 14 flavors

Flavor	Status	Time
r-devel-linux-x86_64-debian-clang	ERROR	25.1s
r-devel-linux-x86_64-debian-gcc	OK	28.6s
r-devel-linux-x86_64-fedora-clang	OK	62.1s
r-devel-linux-x86_64-fedora-gcc	OK	69.4s
r-devel-macos-arm64	OK	18s
r-devel-windows-x86_64	OK	59s
r-oldrel-macos-arm64	ERROR	27s
r-oldrel-macos-x86_64	OK	112s
r-oldrel-windows-x86_64	OK	69s
r-patched-linux-x86_64	OK	34.5s
r-release-linux-x86_64	OK	34.3s
r-release-macos-arm64	OK	30s
r-release-macos-x86_64	ERROR	137s
r-release-windows-x86_64	OK	58s

Check details (15 non-OK)

ERROR r-devel-linux-x86_64-debian-clang

re-building of vignette outputs

Error(s) in re-building vignettes:
  ...
--- re-building ‘introduction.Rmd’ using rmarkdown

Quitting from introduction.Rmd:21-29 [unnamed-chunk-2]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `library()`:
! there is no package called 'annotate'
---
Backtrace:
    ▆
 1. └─base::library("annotate")
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'introduction.Rmd' failed with diagnostics:
there is no package called 'annotate'
--- failed re-building ‘introduction.Rmd’

SUMMARY: processing the following file failed:
  ‘introduction.Rmd’

Error: Vignette re-building failed.
Execution halted

OK r-devel-linux-x86_64-debian-gcc

OK r-devel-linux-x86_64-fedora-clang

OK r-devel-linux-x86_64-fedora-gcc

OK r-devel-macos-arm64

OK r-devel-windows-x86_64

NOTE r-oldrel-macos-arm64

package dependencies

Package suggested but not available for checking: ‘org.Mm.eg.db’

ERROR r-oldrel-macos-arm64

re-building of vignette outputs

Error(s) in re-building vignettes:
--- re-building ‘introduction.Rmd’ using rmarkdown

Quitting from introduction.Rmd:21-29 [unnamed-chunk-2]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `library()`:
! there is no package called 'org.Mm.eg.db'
---
Backtrace:
    ▆
 1. └─base::library("org.Mm.eg.db")
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'introduction.Rmd' failed with diagnostics:
there is no package called 'org.Mm.eg.db'
--- failed re-building ‘introduction.Rmd’

SUMMARY: processing the following file failed:
  ‘introduction.Rmd’

Error: Vignette re-building failed.
Execution halted

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

ERROR r-release-macos-x86_64

re-building of vignette outputs

Error(s) in re-building vignettes:
--- re-building ‘introduction.Rmd’ using rmarkdown

Quitting from introduction.Rmd:21-29 [unnamed-chunk-2]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `library()`:
! there is no package called 'org.Mm.eg.db'
---
Backtrace:
    ▆
 1. └─base::library("org.Mm.eg.db")
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'introduction.Rmd' failed with diagnostics:
there is no package called 'org.Mm.eg.db'
--- failed re-building ‘introduction.Rmd’

SUMMARY: processing the following file failed:
  ‘introduction.Rmd’

Error: Vignette re-building failed.
Execution halted

OK r-release-windows-x86_64

Check History

ERROR 11 OK · 0 NOTE · 0 WARNING · 3 ERROR · 0 FAILURE Mar 9, 2026

ERROR r-devel-linux-x86_64-debian-clang

re-building of vignette outputs

Error(s) in re-building vignettes:
  ...
--- re-building ‘introduction.Rmd’ using rmarkdown

Quitting from introduction.Rmd:21-29 [unnamed-chunk-2]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `library()`:
! there is no package called 'annotate'
---
Backtrace:
    ▆
 1. └─base::library("annotate")
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'introduction.Rmd' failed w

ERROR r-release-macos-x86_64

re-building of vignette outputs

Error(s) in re-building vignettes:
--- re-building ‘introduction.Rmd’ using rmarkdown

Quitting from introduction.Rmd:21-29 [unnamed-chunk-2]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `library()`:
! there is no package called 'org.Mm.eg.db'
---
Backtrace:
    ▆
 1. └─base::library("org.Mm.eg.db")
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'introduction.Rmd' failed

ERROR r-oldrel-macos-arm64

package dependencies

Package suggested but not available for checking: ‘org.Mm.eg.db’

Dependency Network

Version History

new 1.0.3 Mar 10, 2026