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

Pipeline for building topologically-constrained phylogenies from DNA barcode data

Parser of BLAST results

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

DNA barcoding analysis pipeline

Tools for managing OTU definitions for barcoding fungi

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

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

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

Files from DIMACS 2007 DNA barcoding challenge

A bioinformatics pipeline that enables DNA barcode classification using a novel strobemer based profile hidden markov model (sPHMM) method.

Repository containing a python script for barcode gap plotting, as well as an example input-file for the script.

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

Bayesian modeling of DNA-barcoded tumor mixtures to quantify genotype-specific treatment resistance

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

Mediterranean fish species ID from COI sequences. SVM matches BLAST at ~100x speed. Includes interpretability probe.