The dada2 package 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.
|Author||Benjamin Callahan <email@example.com>, Paul McMurdie, Susan Holmes|
|Bioconductor views||Classification ImmunoOncology Metagenomics Microbiome Sequencing|
|Maintainer||Benjamin Callahan <firstname.lastname@example.org>|
|Package repository||View on Bioconductor|
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