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Git Source Code Mirror - This is a publish-only repository but pull requests can be turned into patches to the mailing list via GitGitGadget (https://gitgitgadget.github.io/). Please follow Documen…
Graph database optimized for fast analysis and real-time data processing. It is provided as an extension to PostgreSQL.
A parallel implementation of gzip for modern multi-processor, multi-core machines.
A versatile pairwise aligner for genomic and spliced nucleotide sequences
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)
AgensGraph, a transactional graph database based on PostgreSQL
MMseqs2: ultra fast and sensitive search and clustering suite
bedtools - the swiss army knife for genome arithmetic
De novo assembler for single molecule sequencing reads using repeat graphs
Foldseek enables fast and sensitive comparisons of large structure sets.
Creates a graph of dependencies from GNU-Make; Output is a graphiz-dot file or a Gexf-XML file.
Redbean: A fuzzy Bruijn graph approach to long noisy reads assembly
Official home of genome aligner based upon notion of Cactus graphs
Fast and accurate de novo assembler for long reads
Fast taxonomic classification of metagenomic sequencing reads using a protein reference database
MrBayes is a program for Bayesian inference and model choice across a wide range of phylogenetic and evolutionary models. For documentation and downloading the program, please see the home page:
Next generation sequencing reads de novo assembler.
Tools for manipulating sequence graphs in the GFA and rGFA formats
MetaEuk - sensitive, high-throughput gene discovery and annotation for large-scale eukaryotic metagenomics