readyomics
Ready-to-Use Omics Formatting, Analysis, and Visualization Pipeline
Description
Provides a flexible and streamlined pipeline for formatting, analyzing, and visualizing omics data, regardless of omics type (e.g. transcriptomics, proteomics, metabolomics). The package includes tools for shaping input data into analysis-ready structures, fitting linear or mixed-effect models, extracting key contrasts, and generating a rich variety of ready-to-use publication-quality plots. Designed for transparency and reproducibility across a wide range of study designs, with customizable components for statistical modeling.
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CRAN Check Status
Show all 14 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 | OK |
| r-devel-linux-x86_64-fedora-gcc | OK |
| r-devel-macos-arm64 | OK |
| 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 | ERROR |
| 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 (14 non-OK)
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re-building of vignette outputs
Error(s) in re-building vignettes: ... --- re-building ‘readyomics.Rmd’ using rmarkdown Quitting from readyomics.Rmd:181-190 [unnamed-chunk-12] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ <error/rlang_error> Error in `mva()`: ! could not find function "mva" ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'readyomics.Rmd' failed with diagnostics: could not find function "mva" --- failed re-building ‘readyomics.Rmd’ SUMMARY: processing the following file failed: ‘readyomics.Rmd’ Error: Vignette re-building failed. Execution halted
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Check History
ERROR 13 OK · 0 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE Mar 9, 2026
re-building of vignette outputs
Error(s) in re-building vignettes: ... --- re-building ‘readyomics.Rmd’ using rmarkdown Quitting from readyomics.Rmd:181-190 [unnamed-chunk-12] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ <error/rlang_error> Error in `mva()`: ! could not find function "mva" ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'readyomics.Rmd' failed with diagnostics: could not find function "mva" --- failed re-buildin