ANCOMBC
Bioc currentMicrobiome differential abudance and correlation analyses with bias correction
Release Lineage
Entered 3.12 · Oct 28, 2020
Current · Requires R 4.6
Description
ANCOMBC is a package containing differential abundance (DA) and correlation analyses for microbiome data. Specifically, the package includes Analysis of Compositions of Microbiomes with Bias Correction 2 (ANCOM-BC2), Analysis of Compositions of Microbiomes with Bias Correction (ANCOM-BC), and Analysis of Composition of Microbiomes (ANCOM) for DA analysis, and Sparse Estimation of Correlations among Microbiomes (SECOM) for correlation analysis. Microbiome data are typically subject to two sources of biases: unequal sampling fractions (sample-specific biases) and differential sequencing efficiencies (taxon-specific biases). Methodologies included in the ANCOMBC package are designed to correct these biases and construct statistically consistent estimators.
Code & tests
Open call graph →Line coverage
–
Expression
–
Tests / Examples
–
Functions
34 7 exported
Complexity
7.8 avg / 46 max
Call network
34 nodes / 39 edges
Test coverage is not measured for Bioconductor packages; nodes fall back to a neutral fill.
Lowest coverage
Per-function coverage is not measured for this package yet.
Code
Structure
Lines of code
9,441
Files
43
Compiled share
0%
Has compiled src
No
Language breakdown
API
Exported functions
7
Internal functions
27
Recent export changes
Testing & CI
Has tests
Yes
Test-to-code ratio
0.02
testthat edition
–
CI present
No
CI type
[]
PR gated
No
Docs
Return-value doc rate
100%
\dontrun example ratio
0%
Roxygen coverage
100%
Has pkgdown
No
NEWS present
Yes
Health & Security signals
Informational signals; not verdicts.
on.exit coverage
0%
Unsafe pattern score
0
Dep constraint coverage
0%
Secret pattern count
0
Bundled 3rd-party code
2 items
Portability & License
Min R version
4.5.0
System requirements
–
C++ standard
–
License
Artistic-2.0
License flags
SPDX valid, OSI approved
History
Versions
12
First release
2021-03-09
Latest release
2026-04-28
Avg cadence
159 days
Cold removal rate
–
Dep drift
42
LOC over versions
Per-file churn detail lives in the source pipeline: https://github.com/r-observatory/bioc-code-metrics.
Topics
Depended on by (4)
Bioconductor (3)
CRAN (1)
People
- Huang Lin maintainer author