cooccurNet: an R package for co-occurrence network construction and analysis
cooccurNet: an R package for co-occurrence network construction and analysis
复制标题
coocurNet：用于共现网络构建和分析的 R 包
DOI：
10.1093/bioinformatics/btx062
复制
发表时间：
2017
期刊：
影响因子：
5.8
通讯作者：
Peng Yousong
中科院分区：
文献类型：
--
作者：
Zou Yuanqiang;Wu Zhiqiang;Deng Lizong;Wu Aiping;Wu Fan;Li Kenli;Jiang Taijiao;Peng Yousong
MotivationPreviously, we developed a computational model to identify genomic co-occurrence networks that was applied to capture the coevolution patterns within genomes of influenza viruses. To facilitate easy public use of this model, an R package ‘cooccurNet’ is presented here.Results‘cooccurNet’ includes functionalities of construction and analysis of residues (e.g. nucleotides, amino acids and SNPs) co-occurrence network. In addition, a new method for measuring residues coevolution, defined as residue co-occurrence score (RCOS), is proposed and implemented in ‘cooccurNet’ based on the co-occurrence network.Availability and Implementation‘cooccurNet’ is publicly available on CRAN repositories under the GPL-3 Open Source License (http://cran.r-project.org/package=cooccurNet)Supplementary informationSupplementary data are available atBioinformaticsonline.
