Amplicon sequencing analysis workflow using DADA2 and QIIME2

Standardized and Automated MetaBarcoding Analyses workflow (Mirror)

accessory functions for processing microbial community data

A repository with a general dada2 pipeline for amplicon processing

Supplementary files for Ribeiro et al. ISME 2018

This repository contains 18S reference sets that can be used with the RDP Classifier to classify 18S rDNA metabarcode sequences.

This repository contains the scripts used to process Illumina MiSeq 18S, ITS2, and CO1 metabarcodes for Jesse Hoage's Master's thesis (2018). The ammended CO1 reference set is also included here (CO1 Classifier v2.1).

A simple script to detect chimeric sequences in 16S/18S metagenomic samples.

Description of the metagenomic pipeline we have for analysis of 16S and 18S amplicon NGS

Pipeline for amplicon sequencing projects. OTUs can be build with various methods (usearch,vsearch,uparse,swarm) and classified using the RDP Classifier and SINA. Final output is a BIOM file for downstream processing (Phyloseq/R)

Super fast script for classifying metagenomic 16S/18S sequences