PseKNC-General | Datasets2Tools

General Information

Description	A cross-platform package for generating various modes of pseudo nucleotide compositions
Homepage	http://lin.uestc.edu.cn/server/pseknc

Publications

Bioinformatics (2014)

PseKNC-General: a cross-platform package for generating various modes of pseudo nucleotide compositions

Wei Chen; Xitong Zhang; Jordan Brooker; Hao Lin; Liqing Zhang; Kuo-Chen Chou

Summary: 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.

Availability and implementation: The package is freely available at: http://lin.uestc.edu.cn/server/pseknc .

Contact: chenweiimu@gmail.com or lqzhang@vt.edu or kcchou@gordonlifescience.org .

Supplementary information: Supplementary data are available at Bioinformatics online.

DOI: https://doi.org/10.1093/bioinformatics/btu602

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