GATB : Genome Analysis Toolbox with de-Bruijn graph
The Genome Analysis Toolbox with de-Bruijn graph (GATB) provides a set of highly effici...ganisms such as bacteria, plants, animals and even complex samples (e.g. metagenomes). More at https://gatb.inri...2973 days ago
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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...2958 days ago
Hagfish - assess an assembly through creative use of coverage plots
...uilds on the concept of coverage plots and aims to assist (amongst others) in quality control of de novo genome assembly or identification of structural variation in a genome re-sequencing experiment. Ha...2951 days ago
MOSAIK: A Hash-Based Algorithm for Accurate Next-Generation Sequencing Short-Read Mapping
...for mapping second and third-generation sequencing reads to a reference genome. Uniquely among current mappi...ated data (sequencing technologies, low-coverage and exome) in the 1000 Genomes Project. To provide highly a...2951 days ago
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Stand-alone programs for Bioinformatician
...tand-alone use, built specifically for a Linux 64-bit machine. For help on the bigBed and bigWig applications see:http://genome.ucsc.edu/goldenPath/help/bigBed.htmlhttp://genome.ucsc.edu/goldenPath/help/bigW...2949 days ago
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