Source: r-bioc-dada2 Maintainer: Debian R Packages Maintainers Uploaders: Steffen Moeller Section: gnu-r Testsuite: autopkgtest-pkg-r Priority: optional Build-Depends: debhelper-compat (= 13), dh-r, r-base-dev, r-cran-rcpp (>= 0.12.0), r-bioc-biostrings (>= 2.42.1), r-cran-ggplot2 (>= 2.1.0), r-cran-reshape2 (>= 1.4.1), r-bioc-shortread (>= 1.32.0), r-cran-rcppparallel, r-bioc-iranges (>= 2.6.0), r-bioc-xvector (>= 0.16.0), r-bioc-biocgenerics (>= 0.22.0) Standards-Version: 4.5.0 Vcs-Browser: https://salsa.debian.org/r-pkg-team/r-bioc-dada2 Vcs-Git: https://salsa.debian.org/r-pkg-team/r-bioc-dada2.git Homepage: https://bioconductor.org/packages/dada2/ Rules-Requires-Root: no Package: r-bioc-dada2 Architecture: any-amd64 Depends: ${R:Depends}, ${shlibs:Depends}, ${misc:Depends} Recommends: ${R:Recommends} Suggests: ${R:Suggests} Description: sample inference from amplicon sequencing data The dada2 package contributes to software workflows to interpret sequencing data from microbiota - the relative abundance of bacterial and/or yeast, typically measured in the gut. It infers exact amplicon sequence variants (ASVs) from high-throughput amplicon sequencing data, replacing the coarser and less accurate OTU clustering approach. The dada2 pipeline takes as input demultiplexed fastq files, and outputs the sequence variants and their sample-wise abundances after removing substitution and chimera errors. Taxonomic classification is available via a native implementation of the RDP naive Bayesian classifier, and species-level assignment to 16S rRNA gene fragments by exact matching.