DADA2: High resolution sample inference from Illumina amplicon data
We present the open source software package DADA2 for modeling and correcting Illumina sequenced amplicon errors (https:/github.com/benjjneb/dada2) DADA2 infers sample sequences exactly and resolves differences of as little as 1 nucleotide. In several mock communities, DADA2 identified more real variants and output fewer spurious sequences than other methods. We applied DADA2 to vaginal samples from a cohort of pregnant women, revealing a diversity of previously undetected Lactobacillus crispatus variants.
Nature Methods