BUSCO: assessing genome assembly and annotation completeness with single-copy orthologs

Motivation: Genomics has revolutionized biological research, but quality assessment of the resulting assembled sequences is complicated and remains mostly limited to technical measures like N50. Results: We propose a measure for quantitative assessment of genome assembly and annotation completeness...

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Published inBioinformatics Vol. 31; no. 19; pp. 3210 - 3212
Main Authors Simão, Felipe A., Waterhouse, Robert M., Ioannidis, Panagiotis, Kriventseva, Evgenia V., Zdobnov, Evgeny M.
Format Journal Article
LanguageEnglish
Published England 01.10.2015
Subjects
Animals
Annotations
Assembly
Assessments
Bioinformatics
Completeness
Computational Biology - methods
Computer programs
Gene Dosage - genetics
Genome
Genomes
Genomics - methods
Humans
Molecular Sequence Annotation - methods
Software
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Summary:Motivation: Genomics has revolutionized biological research, but quality assessment of the resulting assembled sequences is complicated and remains mostly limited to technical measures like N50. Results: We propose a measure for quantitative assessment of genome assembly and annotation completeness based on evolutionarily informed expectations of gene content. We implemented the assessment procedure in open-source software, with sets of Benchmarking Universal Single-Copy Orthologs, named BUSCO. Availability and implementation: Software implemented in Python and datasets available for download from http://busco.ezlab.org. Contact:  evgeny.zdobnov@unige.ch Supplementary information:  Supplementary data are available at Bioinformatics online.
Bibliography:ObjectType-Article-1
SourceType-Scholarly Journals-1
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ISSN:1367-4803
1367-4811
1367-4811
1460-2059
DOI:10.1093/bioinformatics/btv351