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Bioconductor - Rbec (development version)

Rbec

This is the development version of Rbec; for the stable release version, see Rbec.

Rbec: a tool for analysis of amplicon sequencing data from synthetic microbial communities

Bioconductor version: Development (3.22)

Rbec is a adapted version of DADA2 for analyzing amplicon sequencing data from synthetic communities (SynComs), where the reference sequences for each strain exists. Rbec can not only accurately profile the microbial compositions in SynComs, but also predict the contaminants in SynCom samples.

Author: Pengfan Zhang [aut, cre]

Maintainer: Pengfan Zhang <pzhang at mpipz.mpg.de>

Citation (from within R, enter citation("Rbec")): Installation

To install this package, start R (version "4.5") and enter:


if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("Rbec")

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("Rbec")
Details biocViews MicrobialStrain, Microbiome, Sequencing, Software Version 1.17.0 In Bioconductor since BioC 3.13 (R-4.1) (4 years) License LGPL-3 Depends Imports Rcpp (>= 1.0.6), dada2, ggplot2, readr, doParallel, foreach, grDevices, stats, utils System Requirements URL See More Package Archives

Follow Installation instructions to use this package in your R session.

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