metamicrobiomeR
Microbiome Data Analysis & Meta-Analysis with GAMLSS-BEZI & Random Effects
Description
Generalized Additive Model for Location, Scale and Shape (GAMLSS) with zero inflated beta (BEZI) family for analysis of microbiome relative abundance data (with various options for data transformation/normalization to address compositional effects) and random effects meta-analysis models for meta-analysis pooling estimates across microbiome studies are implemented. Random Forest model to predict microbiome age based on relative abundances of shared bacterial genera with the Bangladesh data (Subramanian et al 2014), comparison of multiple diversity indexes using linear/linear mixed effect models and some data display/visualization are also implemented. The reference paper is published by Ho NT, Li F, Wang S, Kuhn L (2019) <doi:10.1186/s12859-019-2744-2> .
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| 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 | OK |
| r-devel-windows-x86_64 | NOTE |
| r-oldrel-macos-arm64 | OK |
| r-oldrel-macos-x86_64 | OK |
| r-oldrel-windows-x86_64 | NOTE |
| r-patched-linux-x86_64 | NOTE |
| r-release-linux-x86_64 | NOTE |
| r-release-macos-arm64 | OK |
| r-release-macos-x86_64 | OK |
| r-release-windows-x86_64 | NOTE |
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metatab.show: no visible binding for global variable ‘id’ Undefined global functions or variables: id
dependencies in R code
Namespace in Imports field not imported from: ‘lmerTest’ All declared Imports should be used.
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metatab.show: no visible binding for global variable 'id' Undefined global functions or variables: id
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metatab.show: no visible binding for global variable 'id' Undefined global functions or variables: id
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metatab.show: no visible binding for global variable ‘id’ Undefined global functions or variables: id
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metatab.show: no visible binding for global variable 'id' Undefined global functions or variables: id
Check History
NOTE 5 OK · 9 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE Mar 9, 2026
R code for possible problems
metatab.show: no visible binding for global variable ‘id’ Undefined global functions or variables: id
R code for possible problems
metatab.show: no visible binding for global variable ‘id’ Undefined global functions or variables: id
dependencies in R code
Namespace in Imports field not imported from: ‘lmerTest’ All declared Imports should be used.
dependencies in R code
Namespace in Imports field not imported from: ‘lmerTest’ All declared Imports should be used.
R code for possible problems
metatab.show: no visible binding for global variable 'id' Undefined global functions or variables: id
R code for possible problems
metatab.show: no visible binding for global variable ‘id’ Undefined global functions or variables: id
R code for possible problems
metatab.show: no visible binding for global variable ‘id’ Undefined global functions or variables: id
R code for possible problems
metatab.show: no visible binding for global variable 'id' Undefined global functions or variables: id
R code for possible problems
metatab.show: no visible binding for global variable 'id' Undefined global functions or variables: id