r2cat: synteny plots and comparative assembly
r2cat: synteny plots and comparative assembly
复制标题
DOI：
10.1093/bioinformatics/btp690
复制
发表时间：
2010-02-15
期刊：
影响因子：
5.8
通讯作者：
Stoye, Jens
中科院分区：
文献类型：
--
作者：
Husemann, Peter;Stoye, Jens
最近的平行焦磷酸测序方法和越来越多的完成的基因组鼓励测序和密切相关的菌株的调查。虽然每一代机器的测序本身变得更容易和更便宜，但基因组的完成仍然很困难。代替所需的整个基因组序列，一组重叠群是组装的结果。在本应用笔记中，我们介绍了工具r2cat（相关参考重叠群排列工具），它有助于比较组装的任务，还为同线性检查提供了交互式可视化。
Recent parallel pyrosequencing methods and the increasing number of finished genomes encourage the sequencing and investigation of closely related strains. Although the sequencing itself becomes easier and cheaper with each machine generation, the finishing of the genomes remains difficult. Instead of the desired whole genomic sequence, a set of contigs is the result of the assembly. In this applications note, we present the tool r2cat (related reference contig arrangement tool) that helps in the task of comparative assembly and also provides an interactive visualization for synteny inspection.