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bioRxiv · 10.1101/075978

GenomeScope: Fast reference-free genome profiling from short reads

Gregory W Vurture·Fritz J Sedlazeck·Maria Nattestad·Charles J. Underwood·Han Fang·James Gurtowski·Michael Schatz
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Abstract

SummaryGenomeScope is an open-source web tool to rapidly estimate the overall characteristics of a genome, including genome size, heterozygosity rate, and repeat content from unprocessed short reads. These features are essential for studying genome evolution, and help to choose parameters for downstream analysis. We demonstrate its accuracy on 324 simulated and 16 real datasets with a wide range in genome sizes, heterozygosity levels, and error rates.\n\nAvailability and Implementationhttp://genomescope.org, https://github.com/schatzlab/genomescope.git\n\nContactmschatz@jhu.edu.\n\nSupplementary informationSupplementary data are available at Bioinformatics online.

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Gregory W Vurture, Fritz J Sedlazeck, Maria Nattestad, Charles J. Underwood, Han Fang, James Gurtowski, Michael Schatz. 2016-09-19. GenomeScope: Fast reference-free genome profiling from short reads. https://doi.org/10.1101/075978

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