OX COI Messenger - a Flutter app for the COI (Chat Over IMAP) standard

AMPtk: Amplicon ToolKit for NGS data (formally UFITS)

This repository contains CO1 reference sets that can be used with the RDP Classifier to classify CO1 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

Snakemake bioinformatic pipeline to process COI mtDNA metabarcodes

A Python3 implementation of the SCVUC pipeline by Dr. Teresita M. Porter.

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."

COI sequences files used to test the COI Classifier Web Portal

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."

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).

Data flow to process COI metabarcodes

A set of Xcode file templates to use when developing on OX Coi