Rbec
Rbec: a tool for analysis of amplicon sequencing data from synthetic microbial communities
Bioconductor version: 3.23 · Package version: 1.20.0
Other Bioconductor versions
devel is the development version; release is the current stable one.
3.24 (devel), 3.23 (release)
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.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("Rbec")Details
| Maintainer | Pengfan Zhang <pzhang@mpipz.mpg.de> |
| Author | Pengfan Zhang [aut, cre] |
| License | LGPL-3 |
| Source branch | RELEASE_3_23 |
| Build report | Bioconductor build system, r-universe |
| biocViews | MicrobialStrain, Microbiome, Sequencing, Software |
| Package Short Url | https://bioconductor.org/packages/Rbec/ |
Citation
From within R, enter citation("Rbec"):
Pengfan Zhang. Rbec: Rbec: a tool for analysis of amplicon sequencing data from synthetic microbial communities. doi:10.18129/B9.bioc.Rbec, R package version 1.20.0, https://bioconductor.org/packages/Rbec.
Generated from the package metadata; it may differ from the package's own citation.
Documentation
Download
Follow the installation instructions to use this package in your R session.
| Source package | Rbec_1.20.0.tar.gz |
| Windows binary (x86_64) | Rbec_1.20.0.zip |
| macOS binary (x86_64) | Rbec_1.20.0.tgz |
Dependencies
Imports: Rcpp (>= 1.0.6), dada2, ggplot2, readr, doParallel, foreach, grDevices, stats, utils
LinkingTo: Rcpp