dna-barcoding

A Go package for engineering organisms.

High-performance dual barcode and primer demultiplexer for MinION sequenced reads, optimized for fungal DNA barcoding.

An R package for pre-processing and error evaluation of COI-5P barcode data

Parser of BLAST results

Automated DNA barcoding pipeline: chromatogram → phylogeny → species ID. Zero coding required. Built for ENTM201L @ UC Riverside. Docker + GitHub Classroom ready.

This repository contains data and code from the manuscript, "Analysis of biodiversity data suggests that species are hidden in predictable places".

Pipeline for building topologically-constrained phylogenies from DNA barcode data

Tools for managing OTU definitions for barcoding fungi

DNA barcoding analysis pipeline

Code, deviation log and manuscript for an open-world evaluation of a learned fungal ITS embedding against correctly configured VSEARCH alignment.

My first DNA barcoding project - Philippine Eagle, Barn Owl, and Sumatran Rhinoceros

Repository for the 2026 Microsoft hackathon in Dublin - Naturalis use case

A sequence-by-sequence denoiser for COI DNA barcode and metabarcode data

Python 3 rewrite of ONTbarcoder 2.3: demultiplexing and barcode calling for Oxford Nanopore reads, with a rebuilt GUI and added analysis tools.

Bioinformatic processes used to obtain invertebrate DNA barcodes from Illumina sequencing output

Nanopore-based amplicon pipeline for Anopheles species identification using COX1 and ITS2 consensus sequencing

DNA barcode-based aquatic species classification using canonical k-mer frequencies and RandomForest. 96% top-1 accuracy on 2,100+ species.

Pocket field-biology sim — collect California species, barcode them in the lab — a BioKEA game.

Open-source desktop software for reproducible Sanger sequencing analysis, review, consensus building, alignment, and BLAST workflows.