PseKNC-General: a cross-platform package for generating various modes of pseudo nucleotide compositions
PseKNC-General: a cross-platform package for generating various modes of pseudo nucleotide compositions
复制标题
PseKNC-General：用于生成各种模式的假核苷酸组合物的跨平台包
DOI：
10.1093/bioinformatics/btu602
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发表时间：
2015-01-01
期刊：
影响因子：
5.8
通讯作者：
Chou, Kuo-Chen
中科院分区：
文献类型：
--
作者：
Chen, Wei;Zhang, Xitong;Chou, Kuo-Chen
后基因组时代产生的大量基因组序列需要高效的计算方法来快速准确地从序列信息中识别生物特征。为了实现这一目标，我们开发了一个免费提供的开源软件包，称为PseKNC-General（伪k元组核苷酸组成的一般形式），它允许快速准确地计算DNA和RNA序列的所有广泛使用的核苷酸结构和物理化学性质。PseKNC-General可以生成几种模式的伪核苷酸组合物，包括常规的k元组核苷酸组合物、Moreau-Broto自相关系数、Moran自相关系数、Geary自相关系数、I型PseKNC和II型PseKNC。在每种模式下，都有超过100种物理化学性质可供选择。此外，它足够灵活，允许用户使用用户定义的属性计算PseKNC。该软件包可以在Linux、Mac和Windows系统上运行，并提供图形用户界面。
The avalanche of genomic sequences generated in the post-genomic age requires efficient computational methods for rapidly and accurately identifying biological features from sequence information. Towards this goal, we developed a freely available and open-source package, called PseKNC-General (the general form of pseudo k-tuple nucleotide composition), that allows for fast and accurate computation of all the widely used nucleotide structural and physicochemical properties of both DNA and RNA sequences. PseKNC-General can generate several modes of pseudo nucleotide compositions, including conventional k-tuple nucleotide compositions, Moreau-Broto autocorrelation coefficient, Moran autocorrelation coefficient, Geary autocorrelation coefficient, Type I PseKNC and Type II PseKNC. In every mode, >100 physicochemical properties are available for choosing. Moreover, it is flexible enough to allow the users to calculate PseKNC with user-defined properties. The package can be run on Linux, Mac and Windows systems and also provides a graphical user interface.