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AMPtk: Amplicon ToolKit for NGS data (formally UFITS)
This repository contains CO1 reference sets that can be used with the RDP Classifier, BLAST, or SINTAX to classify COI metabarcode sequences.
This repository contains the scripts used to retrieve and analyze the data reported in Porter & Hajibabaei 2018 bioRxiv doi: https://doi.org/10.1101/353904
Datasets and code used to create figures in "Hajibabaei et al., 2019. COI metabarcoding primer choice affects richness and recovery of indicator taxa in freshwater systems. PLoS ONE 14(9): e0220953."
Snakemake bioinformatic pipeline to process COI mtDNA metabarcodes
Data flow to process COI metabarcodes
COI sequences files used to test the COI Classifier Web Portal
Datasets and code used to create figures in "Hajibabaei et al., 2019. Watered-down biodiversity? A comparison of metabarcoding results from DNA extracted from matched water and bulk tissue biomonitoring samples. PLoS ONE 14(12): e0225409."