Tools (written in C using htslib) for manipulating next-generation sequencing data

Burrow-Wheeler Aligner for short-read alignment (see minimap2 for long-read alignment)

A flexible framework for rapid genome analysis and interpretation

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

Whole Genome Simulator for Next-Generation Sequencing

Structural Variant Index

A WGS de novo assembler based on the FMD-index for large genomes

This is *NOT* the official repository of samtools.

program for haplotype phasing from sequence reads and related tools

Torrent Mapping Alignment Program

BFAST: the Blat-like Fast Accurate Search Tool

Short-read Micro-Aligner

Burrow-Wheeler Aligner

program for haplotype phasing from sequence reads and related tools

Burrow-Wheeler Aligner

Large File Support Testing for Mac OS X Lion