iNAP: An integrated network analysis pipeline for microbiome studies

• DOI: 10.1002/imt2.13
• Publication Date: 2022-03-16T14:09:19Z
• Authors: Kai Feng; Xi Peng; Zheng Zhang; Songsong Gu; Qing He; Wenli Shen; Zhujun Wang; Danrui Wang; Qiulong Hu; Yan Li; Shang Wang; Ye Deng
• Keywords: Network Analysis; Similarity (geometry)

Abstract Integrated network analysis pipeline (iNAP) is an online for generating and analyzing comprehensive ecological networks in microbiome studies. It implemented two sections, that is, construction analysis, integrates many open‐access tools. Network contains multiple feasible alternatives, including correlation‐based approaches (Pearson's correlation Spearman's rank along with random matrix theory, sparse correlations compositional data) conditional dependence‐based methods (extended local similarity inverse covariance estimation association inference), while provides topological structures at different levels the potential effects of environmental factors on structures. Considering full workflow, from data set to result, iNAP molecular interdomain (IDENAP), which correspond intradomain associations microbial species taxonomic levels. Here, we describe detailed workflow by taking IDENAP as example show steps assist researchers conduct relevant analyses using their own sets. Afterwards, some auxiliary tools facilitating are introduced effectively aid switch operations. Therefore, iNAP, easy‐to‐use platform network‐associated approaches, can enable better understand organization communities. available http://mem.rcees.ac.cn:8081 free registration.