nPoRe: n-Polymer Realigner for improved pileup-based variant calling

Modern C++ Programming Course (C++03/11/14/17/20/23/26)

Curation of existing TB gene expression datasets

Profile RNA-seq data using published TB gene signatures

Data, code, and figures for the TB Signature Profiler on malnutrition paper

Implicit Interval Tree with Interpolation Index

A streaming method for mapping nanopore raw signals

Adaptive Banded Event Alignment

Hardware accelerator for real-time ReadUntil filtering of nanopore sequencing squiggles.

DRAGEN open-source mapper

This repository is meant to accompany the paper "Ultra-rapid Sequencing-based Molecular Diagnostics via Real-Time Threshold Sequencing." It is a collection of scripts used to perform certain analys…

A Loop-Mediated Isothermal Amplification (LAMP) concatemer analysis, variant calling, and polishing tool

Sequence-independent identification and removal of adapters/systemic contamination in shotgun sequencing data. https://doi.org/10.1093/bioinformatics/btac389

A rust-binding generator for C files

base-accurate DNA sequence alignments using WFA and mashmap3

The next version of bwa-mem

A versatile pairwise aligner for genomic and spliced nucleotide sequences

Long read / genome alignment software

De novo genome assembler for long uncorrected reads

Benchmarks for persistent memory systems

Wavefront alignment algorithm (WFA): Fast and exact gap-affine pairwise alignment

Assembly methods for nanopore-based metagenomic sequencing: a comparative study

Code required for analysis of Host and Microbe presented in: Integrating Host Response and Unbiased Microbe Detection for Lower Respiratory Tract Infection Diagnosis in Critically Ill Adults

Accelerated kernel library for genomics

Parallel Sequence to Graph Alignment

Scalable Nucleotide Alignment Program -- a fast and accurate read aligner for high-throughput sequencing data

Reads a state transition system and performs property checking