GetOrganelle: a fast and versatile toolkit for accurate de novo assembly of organelle genomes
GetOrganelle: a fast and versatile toolkit for accurate de novo assembly of organelle genomes
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GetOrganelle：快速、多功能的工具包，用于准确地从头组装细胞器基因组
DOI：
10.1186/s13059-020-02154-5
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发表时间：
2020-09-10
期刊：
影响因子：
12.3
通讯作者：
Li, De-Zhu
中科院分区：
文献类型：
--
作者：
Jin, Jian-Jun;Yu, Wen-Bin;Li, De-Zhu
GetOrganelle是一个最先进的工具包，可以从全基因组测序数据中准确组装细胞器基因组。它使用修改后的“诱饵和迭代映射”方法招募细胞器相关读段，进行从头组装，过滤和解开组装图，并产生圆形细胞器基因组的所有可能的配置。对于50个已发表的植物数据集，我们能够使用GetOrganelle从47个数据集中重新组装圆形塑性体。通过映射评估，GetOrganelle组装比已发表和/或NOVOPlasty重新组装的塑性体更准确。我们还使用GetOrganelle组装完整的线粒体基因组。GetOrganelle在GPL-3许可证下免费发布（https：//github.com/Kinggerm/GetOrganelle）。
GetOrganelle is a state-of-the-art toolkit to accurately assemble organelle genomes from whole genome sequencing data. It recruits organelle-associated reads using a modified "baiting and iterative mapping" approach, conducts de novo assembly, filters and disentangles the assembly graph, and produces all possible configurations of circular organelle genomes. For 50 published plant datasets, we are able to reassemble the circular plastomes from 47 datasets using GetOrganelle. GetOrganelle assemblies are more accurate than published and/or NOVOPlasty-reassembled plastomes as assessed by mapping. We also assemble complete mitochondrial genomes using GetOrganelle. GetOrganelle is freely released under a GPL-3 license (https://github.com/Kinggerm/GetOrganelle).