Gentoo Project

Biology Project

Creating and manipulating undirected and directed graphs

Assembly By Short Sequences - a de novo, parallel, paired-end sequence assembler

Eukaryotic gene predictor

Utilities for variant calling and manipulating VCF and BCF files

Perl tools for bioinformatics - Core modules

Perl tools for bioinformatics - Analysis of protein-protein interaction networks

Perl wrapper modules for key bioinformatics applications

The BLAST-Like Alignment Tool, a fast genomic sequence aligner

Popular short read aligner for Next-generation sequencing data

Burrows-Wheeler Alignment Tool, a fast short genomic sequence aligner

Clustering Database at High Identity with Tolerance

An MPI implemention of the ClustalW general purpose multiple alignment algorithm

Generic tool for pairwise sequence comparison

Folding@Home is a distributed computing project for protein folding

A Genomic Mapping and Alignment Program for mRNA and EST Sequences

Inference of RNA alignments

Global and progressive multiple sequence alignment

Near-optimal RNA-Seq quantification

Gordon Text utils Library

Multiple sequence alignments using a variety of algorithms

A Markov Cluster Algorithm implementation

A suite of algorithms for ecological bioinformatics

Bayesian Inference of Phylogeny

Multiple sequence comparison by log-expectation

Utilities for analysing and manipulating the SAM/BAM alignment formats

A graphical multiple sequence alignment editor

C++ Sequence Analysis Library

A program to align cDNA and genomic DNA

STAR aligner: align RNA-seq reads to reference genome uncompressed suffix arrays

A multiple sequence alignment package

Tandem Repeats Finder

tRNA detection in large-scale genome sequences

The UCSC genome browser suite, also known as Jim Kent's library and GoldenPath

Intelligent algorithms for DNA searches