Denglab Metagenomic Analysis Pipeline (DMAP)
This analysis pipeline is built and maintained by Deng Lab and it is suitable for high-throughput sequencing data analysis, focusing on amplicon sequencing data (16S rRNA, ITS, 18S rRNA and functional genes).
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iNAP (integrated Network Analysis Pipeline)
This analysis pipeline is built and maintained by Metagenomics for Environmental Microbiology (MEM) (Deng Lab) and it is used to model, analyze and manage the the Molecular Ecological Networks (MENs) for adjacent matrix and Inter-Domain Ecological Networks (IDENs) for bipartite matrix from metagenomic datasets, e.g. GeoChip and Sequencing, and synchronous plant surveys, including Molecular Ecological Network Analysis (MENA) Pipeline and InterDomain Ecological Network Analysis Pipeline (IDENAP).
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Rapid DEgenerate Primer design program
This analysis pipeline is built by Deng Lab. It is used for sequence database management and primer assessment.
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Antibiotic Resistance Gene Analyzer (ARGA)
This pipeline is used for antibiotic resistance genes (ARGs) analysis based on the Sequence Database for ARGs (SDARG).
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Nitrogen Cycling Functional Gene Analyzer (NcycFunGen)
This pipeline is used for nitrogen functional gene analysis based on the Sequence Database for NcycFunGen.
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Phylogenetic diversity of functional genes in deep-sea cold seeps: a novel perspective on metagenomics

Danrui Wang, Jiangtao Li, Lei Su, Wenli Shen, Kai Feng, Xi Peng, Zhujun Wang, Bo Zhao, Zheng Zhang, Zhaojing Zhang, Étienne Yergeau, Ye Deng*. Microbiome, 2023, 11: 276
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