Friday, June 29, 2012

Fwd: Toward almost closed genomes with GapFiller

Fwd: please follow footer link
Toward almost closed genomes with GapFiller: De novo assembly is a commonly used application of next generation sequencing (NGS) experiments. The ultimate goal is to puzzle millions of reads into one complete genome, although draft assemblies usually result in a number of gapped scaffold sequences. In this paper we propose an automated strategy, called GapFiller, to reliably close gaps within scaffolds using paired-reads. The method shows good results on both bacterial and eukaryotic datasets allowing only few errors. As a consequence the amount of additional wetlab work needed to close a genome is drastically reduced. The software is available at www.baseclear.com/bioinformatics-tools/.

(Original Post: Genome Biology - Latest Articles.)