MicrobiotaProcess
Bioc currentA comprehensive R package for managing and analyzing microbiome and other ecological data within the tidy framework
Release Lineage
Entered 3.11 · Apr 28, 2020
Current · Requires R 4.6
Description
MicrobiotaProcess is an R package for analysis, visualization and biomarker discovery of microbial datasets. It introduces MPSE class, this make it more interoperable with the existing computing ecosystem. Moreover, it introduces a tidy microbiome data structure paradigm and analysis grammar. It provides a wide variety of microbiome data analysis procedures under the unified and common framework (tidy-like framework).
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
418 46 exported
Complexity
3.8 avg / 50 max
Call network
418 nodes / 542 edges
Test coverage is not measured for Bioconductor packages; nodes fall back to a neutral fill.
Call graph
Open call graph →Lowest coverage
Per-function coverage is not measured for this package yet.
Code
Structure
Lines of code
28,447
Files
226
Compiled share
0%
Has compiled src
No
Language breakdown
API
Exported functions
147
Internal functions
366
Testing & CI
Has tests
Yes
Test-to-code ratio
0.01
testthat edition
–
CI present
No
CI type
[]
PR gated
No
Docs
Roxygen coverage
98.6%
Health & Security signals
Informational signals; not verdicts.
on.exit coverage
0%
Unsafe pattern score
39
Dep constraint coverage
9.1%
Secret pattern count
0
Bundled 3rd-party code
2 items
Portability & License
Min R version
4.0.0
System requirements
–
C++ standard
–
License
GPL (>= 3.0)
License flags
not SPDX, not OSI
History
Versions
13
First release
2020-08-05
Latest release
2026-04-28
Avg cadence
169 days
Cold removal rate
100%
Dep drift
24
LOC over versions
Per-file churn detail lives in the source pipeline: https://github.com/r-observatory/bioc-code-metrics.
Documentation
- Examples that run
- 40%
- Documented parameters
- 99%
- Return-value docs
- 79%
- References docs
- 2%
Topics
People
- Shuangbin Xu author maintainer
- Guangchuang Yu author contributor
Cite
Cite this package
Run in R for the authors' preferred citation:
citation("MicrobiotaProcess")This is what citation() produces when a package has no citation file of its own. If it prints something else, use that.
Cite the R Observatory
For a number measured here: a download total, a coverage figure, an archival date.
From data release v2026-08-22, which the citation names so these numbers can be found later. More on citing and the projects behind them.