説明
<jats:title>Abstract</jats:title> <jats:p>We present RaGOO, a reference-guided contig ordering and orienting tool that leverages the speed and sensitivity of Minimap2 to accurately achieve chromosome-scale assemblies in minutes. After the pseudomolecules are constructed, RaGOO identifies structural variants, including those spanning sequencing gaps. We show that RaGOO accurately orders and orients 3 de novo tomato genome assemblies, including the widely used M82 reference cultivar. We then demonstrate the scalability and utility of RaGOO with a pan-genome analysis of 103 <jats:italic>Arabidopsis thaliana</jats:italic> accessions by examining the structural variants detected in the newly assembled pseudomolecules. RaGOO is available open source at <jats:ext-link xmlns:xlink="http://www.w3.org/1999/xlink" ext-link-type="uri" xlink:href="https://github.com/malonge/RaGOO">https://github.com/malonge/RaGOO</jats:ext-link>.</jats:p>
収録刊行物
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- Genome Biology
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Genome Biology 20 (1), 224-, 2019-10-28
Springer Science and Business Media LLC
