Plann: A command-line application for annotating plastome sequences.
Plann: A command-line application for annotating plastome sequences.
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DOI：
10.3732/apps.1500026
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发表时间：
2015-08
影响因子：
3.6
通讯作者：
Cronk QC
中科院分区：
文献类型：
--
作者：
Huang DI;Cronk QC
Plann通过基于相似的、注释良好的质体组注释新的质体组，自动化以GenBank格式注释质体组序列的过程，用于下游处理或用于GenBank提交。Plann是一个在命令行上执行的Perl脚本。Plann将新的质体组序列与参考质体组中注释的特征进行比较，然后将任何匹配特征的间隔移动到新质体组中的位置。Plann的输出可以在国家生物技术信息中心的tbl2asn中使用，以创建用于GenBank提交的Sequin文件。与基于Web的注释包不同，Plann是一个本地可执行的脚本，它将准确地将质体序列注释到本地指定的参考质体。因为它是从命令行执行的，所以它可以在其他软件管道中使用，并且可以很容易地在改进plastome草案时进行修改。
Plann automates the process of annotating a plastome sequence in GenBank format for either downstream processing or for GenBank submission by annotating a new plastome based on a similar, well-annotated plastome. Plann is a Perl script to be executed on the command line. Plann compares a new plastome sequence to the features annotated in a reference plastome and then shifts the intervals of any matching features to the locations in the new plastome. Plann’s output can be used in the National Center for Biotechnology Information’s tbl2asn to create a Sequin file for GenBank submission. Unlike Web-based annotation packages, Plann is a locally executable script that will accurately annotate a plastome sequence to a locally specified reference plastome. Because it executes from the command line, it is ready to use in other software pipelines and can be easily rerun as a draft plastome is improved.