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

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".

Parser of BLAST results

Pipeline for building topologically-constrained phylogenies from DNA barcode data

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

DNA barcoding analysis pipeline

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

Tools for managing OTU definitions for barcoding fungi

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

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

Files from DIMACS 2007 DNA barcoding challenge

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

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

Iterative extrapolation of species haplotype accumulation curves for genetic diversity assessment.

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

R package for extracting chloroplast DNA barcode markers from GenBank plastomes, including rbcL, matK, and psbA-trnH.

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