nf-LO: A scalable, containerised workflow for genome-to-genome lift over
nf-LO: A scalable, containerised workflow for genome-to-genome lift over
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nf-LO：用于基因组到基因组转移的可扩展、容器化工作流程
DOI：
10.1101/2021.05.25.445595
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发表时间：
2021
期刊：
影响因子：
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通讯作者：
Talenti A
中科院分区：
文献类型：
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作者：
Talenti A
新的基因组组装的日益增加的可用性往往伴随着相关基因组注释的缺乏，限制了可以进行的研究的范围。一种常见的解决方法是从注释更好的基因组中提取注释。然而，生成执行提升所需的文件是计算和劳动密集型的，目前只有有限的数量是公开的。在这里，我们提出了nf-LO（nextflow-LiftOver），一个容器化的和可扩展的Nextflow管道，使提升内和之间的任何物种的程序集可用。因此，nf-LO将促进广泛的基因组研究中的数据解释。
The increasing availability of new genome assemblies often comes with a paucity of associated genomic annotations, limiting the range of studies that can be performed. A common workaround is to lift over annotations from better annotated genomes. However, generating the files required to perform a lift over is computationally and labor intensive and only a limited number are currently publicly available.Here we present nf-LO (nextflow-LiftOver), a containerized and scalable Nextflow pipeline that enables lift overs within and between any species for which assemblies are available. nf-LO will consequently facilitate data interpretation across a broad range of genomic studies.