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SATSUMA : Highly sensitive whole-genome synteny alignments.
Satsuma is a whole-genome synteny alignment program. It takes two genomes, computes alignments, and then keeps on...The run-time for aligning two bird-size genomes (~1.2 Gb) is around two days...alma, F., & Lindblad-Toh, K. (2010). Genome-wide synteny through highly s...2926 days ago
Hagfish - assess an assembly through creative use of coverage plots
Hagfish is a tool that is to be used in data analysis o...t others) in quality control of de novo genome assembly or identification of structural variation in a genome re-sequencing experiment. Hagfish requires a reference sequence and a paired...2918 days ago
MOSAIK: A Hash-Based Algorithm for Accurate Next-Generation Sequencing Short-Read Mapping
MOSAIK is a stable, sensitive and open-source program f...second and third-generation sequencing reads to a reference genome. Uniquely among current mappi...technologies, low-coverage and exome) in the 1000 Genomes Project. To provide highly a...2918 days ago
2918 days ago
Stand-alone programs for Bioinformatician
This directory contains applications for stand-alone use, built specificall...chine. For help on the bigBed and bigWig applications see:http://genome.ucsc.edu/goldenPath/help/bigBed.htmlhttp://genome.ucsc.edu/goldenPath/help/bigW...2917 days ago
PolyPhen-2: Prediction of functional effects of human nsSNPs
PolyPhen-2 (Polymorphism Phenotyping v2) is a tool which predicts possible impact of an amino acid substitution on the structure and function of a human protein using straightforward physical and comparative considerations.2916 days ago