ggpicrust2
Make 'PICRUSt2' Output Analysis and Visualization Easier
v2.5.10
·
Feb 12, 2026
·
MIT + file LICENSE
Description
Provides a convenient way to analyze and visualize 'PICRUSt2' output with pre-defined plots and functions. Allows for generating statistical plots about microbiome functional predictions and offers customization options. Features a one-click option for creating publication-level plots, saving time and effort in producing professional-grade figures. Streamlines the 'PICRUSt2' analysis and visualization process. For more details, see Yang et al. (2023) <doi:10.1093/bioinformatics/btad470>.
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CRAN Check Status
1
ERROR
2
NOTE
11
OK
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 | NOTE |
| r-oldrel-macos-x86_64 | NOTE |
| 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 | OK |
| r-release-windows-x86_64 | OK |
Check details (3 non-OK)
NOTE
r-oldrel-macos-arm64
package dependencies
Package suggested but not available for checking: ‘lefser’
NOTE
r-oldrel-macos-x86_64
installed package size
installed size is 5.4Mb
sub-directories of 1Mb or more:
data 3.6Mb
extdata 1.0Mb
ERROR
r-release-macos-arm64
tests
Running ‘testthat.R’ [8s/10s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> library(ggpicrust2)
Loading required package: ggpicrust2
To cite ggpicrust2 in publications use:
Chen Yang, Jiahao Mai, Xuan Cao, Aaron Burberry, Fabio Cominelli, Liangliang Zhang, ggpicrust2: an R package for PICRUSt2 predicted functional profile analysis and visualization, Bioinformatics, Volume 39, Issue 8, August 2023, btad470, https://doi.org/10.1093/bioinformatics/btad470
>
> test_check("ggpicrust2")
Reading input data...
Performing pathway differential abundance analysis...
Annotating pathways...
Creating pathway error bar plots...
Plot 1 skipped (no data for method: mock_method)
ggpicrust2 analysis completed.
Note: Preranked GSEA methods (fgsea, clusterProfiler) do not account for inter-gene correlations, which may lead to unreliable p-values (Wu et al., 2012). Consider using method='camera' or method='fry' for more
...[truncated]...
ethod)
── Error ('test-pathway_daa.R:232:3'): pathway_daa include_abundance_stats parameter works correctly ──
Error in `require_package(method_packages[[daa_method]], purpose = daa_method)`: Package 'ALDEx2' is required for ALDEx2. Install with: BiocManager::install('ALDEx2')
Backtrace:
▆
1. └─ggpicrust2::pathway_daa(...) at test-pathway_daa.R:232:3
2. └─ggpicrust2:::require_package(method_packages[[daa_method]], purpose = daa_method)
── Error ('test-pathway_errorbar.R:227:3'): pathway_errorbar_table function works correctly ──
Error in `require_package(method_packages[[daa_method]], purpose = daa_method)`: Package 'ALDEx2' is required for ALDEx2. Install with: BiocManager::install('ALDEx2')
Backtrace:
▆
1. └─ggpicrust2::pathway_daa(...) at test-pathway_errorbar.R:227:3
2. └─ggpicrust2:::require_package(method_packages[[daa_method]], purpose = daa_method)
[ FAIL 8 | WARN 2 | SKIP 9 | PASS 151 ]
Error:
! Test failures.
Execution halted
Check History
ERROR 11 OK · 2 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE Mar 10, 2026
ERROR
r-release-macos-arm64
tests
Running ‘testthat.R’ [8s/9s] Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(ggpicrust2) Loading required package: ggpicrust2 To cite ggpicrust2 in publications use: Chen Yang, Jiahao Mai, Xuan ...[truncated]... 1. └─ggpicrust2::pathway_daa(...) at test-pathway_errorbar.R:227:3 2. └─ggpicrust2:::require_package(method_packages[[daa_method]], purpose = daa_method) [ FAIL 8 | WARN 2 | SKIP 9 | PASS 151 ] Error: ! Test failures. Execution halted
NOTE
r-oldrel-macos-arm64
package dependencies
Package suggested but not available for checking: ‘lefser’
NOTE
r-oldrel-macos-x86_64
installed package size
installed size is 5.4Mb
sub-directories of 1Mb or more:
data 3.6Mb
extdata 1.0Mb
Dependency Network
Version History
new
2.5.10
Mar 10, 2026
new
1.4.8
Mar 23, 2023