CoGAPS: an R/C++ package to identify patterns and biological process activity in transcriptomic data
CoGAPS: an R/C++ package to identify patterns and biological process activity in transcriptomic data
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DOI：
10.1093/bioinformatics/btq503
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发表时间：
2010-11-01
期刊：
影响因子：
5.8
通讯作者：
Ochs, Michael F.
中科院分区：
文献类型：
--
作者：
Fertig, Elana J.;Ding, Jie;Ochs, Michael F.
模式集中的协调基因活性（CoGAPS）提供了用于分离由生物过程驱动的基因表达的集成包，增强了从转录组数据对生物过程的推断。CoGAPS通过将马尔可夫链蒙特卡罗（MCMC）矩阵分解算法（GAPS）与阈值无关的统计推断基因集的活性相结合，改进了其他富集测量方法。该软件以开源C++代码的形式提供，该代码构建在JAGS软件之上，具有R接口。
Coordinated Gene Activity in Pattern Sets (CoGAPS) provides an integrated package for isolating gene expression driven by a biological process, enhancing inference of biological processes from transcriptomic data. CoGAPS improves on other enrichment measurement methods by combining a Markov chain Monte Carlo (MCMC) matrix factorization algorithm (GAPS) with a threshold-independent statistic inferring activity on gene sets. The software is provided as open source C++ code built on top of JAGS software with an R interface.