dada2-package


The dada2 package is centered around the DADA2 algorithm for accurate high-resolution
of sample composition from amplicon sequencing data. The DADA2 algorithm is both more
sensitive and more specific than commonly used OTU methods, and can resolve sequence
variants that differ by as little as one nucleotide.


package

The dada2 package provides "OTU picking" functionality, but instead
of picking OTUs the DADA2 algorithm exactly infers samples sequences. The dada2
pipeline starts from demultiplexed fastq files, and outputs inferred sample
sequences and associated abundances after removing substitution and chimeric
errors. Taxonomic classification is also available via a native implementation
of the RDP classifier method.

Benjamin Callahan

dada2

Accurate, high-resolution sample inference from amplicon
sequencing data

dada2-package function

The dada2 package is centered around the DADA2 algorithm for accurate high-resolution
of sample composition from amplicon sequencing data. The DADA2 algorithm is both more
sensitive and more specific than commonly used OTU methods, and can resolve sequence
variants that differ by as little as one nucleotide.

dada2-package: DADA2 package

Description

Arguments

Details