期刊
BIOINFORMATICS
卷 31, 期 1, 页码 119-+出版社
OXFORD UNIV PRESS
DOI: 10.1093/bioinformatics/btu602
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资金
- National Nature Science Foundation of China [61100092, 61202256]
- Nature Scientific Foundation of Hebei Province [C2013209105]
- National Science Foundation [NSF] [OCI-1124123]
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.
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