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3. Analysis: DADA2
Katja Kozjek edited this page Nov 26, 2020
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Generation of amplicon sequence variants (ASVs)
- DADA2 (https://benjjneb.github.io/dada2/index.html), v1.14 in R, v3.6.1
- Taxonomic classification using the UNITE database (https://unite.ut.ee/), v8.2, with the dynamic clustering threshold, allowing reverse strand matching, using the naïve Bayesian classifier implemented in DADA2, function ‘assignTaxonomy’
Installation of DADA2
- The easiest method is to use the devtools package to install and compile directly from GitHub:
install.packages("devtools")
library("devtools")
devtools::install_github("benjjneb/dada2", ref="v1.14") # change the ref argument to get other versions