BUSCO applications from quality assessments to gene prediction and phylogenomics

Article Article professionnel Article BUSCO applications from quality assessments to gene prediction and phylogenomics eng 2017 author Waterhouse Robert 654311 author Seppey Mathieu 0000-0003-3248-011X 848435 author Simao Neto Felipe 731423 author Manni Mose 848200 author Ioannidis Panagiotis 808429 author Klioutchnikov Guennadi 886762 author Kriventseva Evgenia 640181 author Zdobnov Evgeny 636914 10.1093/molbev/msx319 29220515 0737-4038 Genomics promises comprehensive surveying of genomes and metagenomes, but rapidly changing technologies and expanding data volumes make evaluation of completeness a challenging task. Technical sequencing quality metrics can be complemented by quantifying completeness of genomic datasets in terms of the expected gene content of Benchmarking Universal Single-Copy Orthologs (BUSCO, http://busco.ezlab.org). The latest software release implements a complete refactoring of the code to make it more flexible and extendable to facilitate high-throughput assessments. The original six lineage assessment datasets have been updated with improved species sampling, 34 new subsets have been built for vertebrates, arthropods, fungi, and prokaryotes that greatly enhance resolution, and datasets are now also available for nematodes, protists, and plants. Here we present BUSCO v3 with example analyses that highlight the wide-ranging utility of BUSCO assessments, which extend beyond quality control of genomics datasets to applications in comparative genomics analyses, gene predictor training, metagenomics, and phylogenomics. Dewey 576.5 135 Département de médecine génétique et développement 21D false 493 Génomique Evolutionnaire Computationnelle 830 Molecular Biology and Evolution 81ae71a8-74a7-4bdc-b20d-3445c27db09d Article (Published version) Restricted msx319.pdf 831374 application/pdf restrictedAccess Faculté de médecine / Section de médecine fondamentale / Département de médecine génétique et développement

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BUSCO applications from quality assessments to gene prediction and phylogenomics	Molecular Biology and Evolution			2017	527	0

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Klioutchnikov, Guennadi