txje

c-minhash

Simple and fast MinHash implementation in C with Python wrapper

sequence-bias-adjustment

Method and utilities for reweighting sequence read counts to adjust for nucleotide bias from assay or sequencing

appengine-rss

A simple RSS feed aggregator and reader for Google AppEngine

lrc_eval

Long read error correction evaluation scripts

amplicon_cluster

De novo clustering of full-length amplicon sequences

flowchart-svg

An extension of svg.js to add flowchart-specific functions

msbwt

A python toolkit for building and querying multi-string BWTs

ralf

A long-read sequence aligner in Rust

anotheraligner

Another aligner with k-mer seeding, chaining, and dynamic banding DP, mostly for educational purposes

bntools

Tools for BioNano data analysis

bulk-fast5-browser

compatible-intervals

Methods for computing genome-wide four-gamete compatible intervals describing local phylogenetic structure

cthulhu

Taxonomic classification of metagenomes (or anything else)

cwDTW

Continuous Wavelet Dynamic Time Warping for unbalanced global mapping of two signals

depore

F-seq

A Feature Density Estimator for High-Throughput Sequence Tags

fastat

flac

Full-length amplicon clustering

fmlrc

a long-read error correction tool using the multi-string Burrows Wheeler Transform

gel-js

KMC

Fast and frugal disk based k-mer counter

minlookup

Fast memory-efficient pre-alignment of long high-error sequences using locality-sensitive hashing

minnow

A long-read RNA quantifier with as confusing a name as possible

overlap-aligner

Tools for semi-global/overlap/edge alignment in C

population-ancestry-viewer

A flexible web-based framework for visualization of collinear genomic features

rekit

A toolkit for processing restriction maps

restriction-map

Display histogram and visual map of restriction enzyme cut sites for fixed data

rust-bio

This library provides implementations of many algorithms and data structures that are useful for bioinformatics. All provided implementations are rigorously tested via continuous integration.

Unicycler

hybrid assembly pipeline for bacterial genomes

vsearch

Versatile open-source tool for metagenomics