Accurate long-read de novo assembly evaluation with Inspector

Abstract Long-read de novo genome assembly continues to advance rapidly. However, there is a lack of effective tools to accurately evaluate the assembly results, especially for structural errors. We present Inspector, a reference-free long-read de novo assembly evaluator which faithfully reports typ...

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Autores principales:	Yu Chen, Yixin Zhang, Amy Y. Wang, Min Gao, Zechen Chong
Formato:	article
Lenguaje:	EN
Publicado:	BMC 2021
Materias:	De novo assembly Long reads Assembly evaluation Assembly error Genome assembly Biology (General) QH301-705.5 Genetics QH426-470
Acceso en línea:	https://doaj.org/article/9b3dc49574f840c49302298d4faf14d1
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spelling	oai:doaj.org-article:9b3dc49574f840c49302298d4faf14d12021-11-14T12:42:50ZAccurate long-read de novo assembly evaluation with Inspector10.1186/s13059-021-02527-41474-760Xhttps://doaj.org/article/9b3dc49574f840c49302298d4faf14d12021-11-01T00:00:00Zhttps://doi.org/10.1186/s13059-021-02527-4https://doaj.org/toc/1474-760XAbstract Long-read de novo genome assembly continues to advance rapidly. However, there is a lack of effective tools to accurately evaluate the assembly results, especially for structural errors. We present Inspector, a reference-free long-read de novo assembly evaluator which faithfully reports types of errors and their precise locations. Notably, Inspector can correct the assembly errors based on consensus sequences derived from raw reads covering erroneous regions. Based on in silico and long-read assembly results from multiple long-read data and assemblers, we demonstrate that in addition to providing generic metrics, Inspector can accurately identify both large-scale and small-scale assembly errors.Yu ChenYixin ZhangAmy Y. WangMin GaoZechen ChongBMCarticleDe novo assemblyLong readsAssembly evaluationAssembly errorGenome assemblyBiology (General)QH301-705.5GeneticsQH426-470ENGenome Biology, Vol 22, Iss 1, Pp 1-21 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	De novo assembly Long reads Assembly evaluation Assembly error Genome assembly Biology (General) QH301-705.5 Genetics QH426-470
spellingShingle	De novo assembly Long reads Assembly evaluation Assembly error Genome assembly Biology (General) QH301-705.5 Genetics QH426-470 Yu Chen Yixin Zhang Amy Y. Wang Min Gao Zechen Chong Accurate long-read de novo assembly evaluation with Inspector
description	Abstract Long-read de novo genome assembly continues to advance rapidly. However, there is a lack of effective tools to accurately evaluate the assembly results, especially for structural errors. We present Inspector, a reference-free long-read de novo assembly evaluator which faithfully reports types of errors and their precise locations. Notably, Inspector can correct the assembly errors based on consensus sequences derived from raw reads covering erroneous regions. Based on in silico and long-read assembly results from multiple long-read data and assemblers, we demonstrate that in addition to providing generic metrics, Inspector can accurately identify both large-scale and small-scale assembly errors.
format	article
author	Yu Chen Yixin Zhang Amy Y. Wang Min Gao Zechen Chong
author_facet	Yu Chen Yixin Zhang Amy Y. Wang Min Gao Zechen Chong
author_sort	Yu Chen
title	Accurate long-read de novo assembly evaluation with Inspector
title_short	Accurate long-read de novo assembly evaluation with Inspector
title_full	Accurate long-read de novo assembly evaluation with Inspector
title_fullStr	Accurate long-read de novo assembly evaluation with Inspector
title_full_unstemmed	Accurate long-read de novo assembly evaluation with Inspector
title_sort	accurate long-read de novo assembly evaluation with inspector
publisher	BMC
publishDate	2021
url	https://doaj.org/article/9b3dc49574f840c49302298d4faf14d1
work_keys_str_mv	AT yuchen accuratelongreaddenovoassemblyevaluationwithinspector AT yixinzhang accuratelongreaddenovoassemblyevaluationwithinspector AT amyywang accuratelongreaddenovoassemblyevaluationwithinspector AT mingao accuratelongreaddenovoassemblyevaluationwithinspector AT zechenchong accuratelongreaddenovoassemblyevaluationwithinspector
_version_	1718429063785218048

Accurate long-read de novo assembly evaluation with Inspector

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