Multi-genome synteny block visualization tool

jq for binary formats - tool, language and decoders for working with binary and text formats

The CSV magician

FastOMA is a scalable software package to infer orthology relationship.

A tool for generating consensus long-read assemblies for bacterial genomes

LexicMap: efficient sequence alignment against millions of prokaryotic genomes

Dividing heterogeneous long-read sequencing into groups with de Bruijn graphs

Command line csv viewer

Tools for plotting methylation data in various ways

Methylation/modified base calling separated from basecalling.

Julia library for stylized terminal output

GUI for inspecting POD5 files

A simplified version of Dorado built on top of S/BLOW5 format.

Comparison of multiple long read datasets

a UNIX shell toolkit for processing and analyzing multiple sequence alignments and phylogenies

JSON for Classic C++

HyGen: Compact and Efficient Genome Sketching using Hyperdimensional Vectors

Introduction to Computational Biology and Bioinformatics Course at Caltech, 2023

Logan Unitigs and Contigs

A tool to find sequencing data and metadata from public databases.

Metabuli: specific and sensitive metagenomic classification via joint analysis of DNA and amino acid.

Java2D wrapper + creative coding supporting functions (based on Processing and openFrameworks)

Main repo. Quil source code.

Go libraries for scientific computing

List system USB buses and devices. A modern cross-platform lsusb that attempts to maintain compatibility with, but also add new features

Earl Grey: A fully automated TE curation and annotation pipeline

PHANTASM: PHylogenomic ANalyses for the TAxonomy and Systematics of Microbes

interactive & hardware agnostic SDK for lab automation