A practical guide to amplicon and metagenomic analysis of microbiome data
Chinese Academy of Sciences · State Key Laboratory of Plant Genomics · +4 more institutions
Abstract
Advances in high-throughput sequencing (HTS) have fostered rapid developments in the field of microbiome research, and massive microbiome datasets are now being generated. However, the diversity of software tools and the complexity of analysis pipelines make it difficult to access this field. Here, we systematically summarize the advantages and limitations of microbiome methods. Then, we recommend specific pipelines for amplicon and metagenomic analyses, and describe commonly-used software and databases, to help researchers select the appropriate tools. Furthermore, we introduce statistical and visualization methods suitable for microbiome analysis, including alpha- and beta-diversity, taxonomic composition,…
Citation impact
- FWCI
- 37.34
- Percentile
- 100%
- References
- 141
Authors
7- YLYongxin LiuCorresponding
Chinese Academy of Sciences, State Key Laboratory of Plant Genomics, Institute of Genetics and Developmental Biology, University of Chinese Academy of Sciences
- YQYuan Qin
Chinese Academy of Sciences, State Key Laboratory of Plant Genomics, Institute of Genetics and Developmental Biology, University of Chinese Academy of Sciences
- TCTong Chen
Chinese Academy of Medical Sciences & Peking Union Medical College
- MLMeiping Lu
Children's Hospital of Zhejiang University
- XQXubo Qian
Children's Hospital of Zhejiang University
Topics & keywords
- Metagenomics
- Microbiome
- Computer science
- Data science
- Visualization
- Software
- Data visualization
- Tracing