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Microbiome differential abudance and correlation analyses with bias correction

Bioconductor version: Release (3.19)

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.

Author: Huang Lin [cre, aut]

Maintainer: Huang Lin <huanglinfrederick at>

Citation (from within R, enter citation("ANCOMBC")):


To install this package, start R (version "4.4") and enter:

if (!require("BiocManager", quietly = TRUE))


For older versions of R, please refer to the appropriate Bioconductor release.


To view documentation for the version of this package installed in your system, start R and enter:

ANCOM Tutorial HTML R Script
ANCOM-BC Tutorial HTML R Script
ANCOM-BC2 Tutorial HTML R Script
SECOM Tutorial HTML R Script
Reference Manual PDF


biocViews DifferentialExpression, Microbiome, Normalization, Sequencing, Software
Version 2.6.0
In Bioconductor since BioC 3.12 (R-4.0) (3.5 years)
License Artistic-2.0
Depends R (>= 4.3.0)
Imports mia(>= 1.6.0), stats, CVXR, DescTools, Hmisc, MASS, Matrix, Rdpack, S4Vectors, SingleCellExperiment, SummarizedExperiment, TreeSummarizedExperiment, doParallel, doRNG, energy, foreach, gtools, lme4, lmerTest, multcomp, nloptr, parallel, utils
System Requirements
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Suggests dplyr, knitr, rmarkdown, testthat, DT, tidyr, tidyverse, microbiome, magrittr
Linking To
Depends On Me
Imports Me benchdamic, microbiomeMarker
Suggests Me dar, MiscMetabar
Links To Me
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Follow Installation instructions to use this package in your R session.

Source Package ANCOMBC_2.6.0.tar.gz
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macOS Binary (x86_64) ANCOMBC_2.6.0.tgz
macOS Binary (arm64) ANCOMBC_2.6.0.tgz
Source Repository git clone
Source Repository (Developer Access) git clone
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