A versatile pairwise aligner for genomic and spliced nucleotide sequences

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

bedtools - the swiss army knife for genome arithmetic

Redbean: A fuzzy Bruijn graph approach to long noisy reads assembly

A complete pipeline for metagenomic analysis

Fast and accurate de novo assembler for long reads

Long read / genome alignment software

Finds SNP sites from a multi-FASTA alignment file

Pairwise whole genome aligner

Pairwise SNP distance matrix from a FASTA sequence alignment

Simple pileup-based variant caller

RawHash can accurately and efficiently map raw nanopore signals to reference genomes of varying sizes (e.g., from viral to a human genomes) in real-time without basecalling. Described by Firtina et…

source code for SynerClust

Reads mapping against target sequences, checking mapping and consensus sequences production