ANCOMBC
This package is for version 3.14 of Bioconductor; for the stable, up-to-date release version, see ANCOMBC.
Analysis of compositions of microbiomes with bias correction
Bioconductor version: 3.14
ANCOMBC is a package for normalizing the microbial observed abundance data due to unequal sampling fractions across samples, and identifying taxa (e.g. phyla, families, genera, species, etc.) that are differentially abundant with respect to the covariate of interest (e.g. study groups) between two or more groups of multiple samples.
Author: Huang Lin [cre, aut] 
, Shyamal Das Peddada [aut]
Maintainer: Huang Lin <HUL40 at pitt.edu>
citation("ANCOMBC")):
Installation
To install this package, start R (version "4.1") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("ANCOMBC")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("ANCOMBC")| ANCOMBC | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | DifferentialExpression, Microbiome, Normalization, Sequencing, Software |
| Version | 1.4.0 |
| In Bioconductor since | BioC 3.12 (R-4.0) (3.5 years) |
| License | Artistic-2.0 |
| Depends | |
| Imports | stats, MASS, nloptr, Rdpack, phyloseq, microbiome |
| System Requirements | |
| URL | https://github.com/FrederickHuangLin/ANCOMBC |
| Bug Reports | https://github.com/FrederickHuangLin/ANCOMBC/issues |
See More
| Suggests | knitr, tidyverse, testthat, DT, magrittr, qwraps2 (>= 0.5.0), rmarkdown |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | microbiomeMarker |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | ANCOMBC_1.4.0.tar.gz |
| Windows Binary | ANCOMBC_1.4.0.zip |
| macOS 10.13 (High Sierra) | ANCOMBC_1.4.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/ANCOMBC |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/ANCOMBC |
| Bioc Package Browser | https://code.bioconductor.org/browse/ANCOMBC/ |
| Package Short Url | https://bioconductor.org/packages/ANCOMBC/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.14 | Source Archive |