文章基本信息

标题：CDAP: An Online Package for Evaluation of Complex Detection Methods
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作者：Ali M. A. Maddi ; Fatemeh Ahmadi Moughari ; Mohammad Mehdi Balouchi 等
期刊名称：Scientific Reports
电子版ISSN：2045-2322
出版年度：2019
卷号：9
期号：1
页码：1-13
DOI：10.1038/s41598-019-49225-7
出版社：Springer Nature
摘要：Methods for detecting protein complexes from protein-protein interaction networks are of the most critical computational approaches. Numerous methods have been proposed in this area. Therefore, it is necessary to evaluate them. Various metrics have been proposed in order to compare these methods. Nevertheless, it is essential to define new metrics that evaluate methods both qualitatively and quantitatively. In addition, there is no tool for the comprehensive comparison of such methods. In this paper, a new criterion is introduced that can fully evaluate protein complex detection algorithms. We introduce CDAP (Complex Detection Analyzer Package); an online package for comparing protein complex detection methods. CDAP can quickly rank the performance of methods based on previously defined as well as newly introduced criteria in various settings (4 PPI datasets and 3 gold standards). It has the capability of integrating various methods and apply several filterings on the results. CDAP can be easily extended to include new datasets, gold standards, and methods. Furthermore, the user can compare the results of a custom method with the results of existing methods. Thus, the authors of future papers can use CDAP for comparing their method with the previous ones. A case study is done on YGR198W, a well-known protein, and the detected clusters are compared to the known complexes of this protein.