A review of methods and databases for metagenomic classification and assembly

• Published in: Briefings in bioinformatics Vol. 20; no. 4; pp. 1125 - 1136
• Main Authors: Breitwieser, Florian P, Lu, Jennifer, Salzberg, Steven L
• Format: Journal Article
• Language: English
• Published: England Oxford University Press 19.07.2019; Oxford Publishing Limited (England)
• Subjects: Algorithms; Assembly; Classification; Computational Biology - methods; Databases, Genetic - statistics & numerical data; Gene Expression Profiling - statistics & numerical data; Genetic Markers; Genomes; High-Throughput Nucleotide Sequencing - statistics & numerical data; Metagenome; Metagenomics; Metagenomics - methods; Metagenomics - statistics & numerical data; Microbiomes; Microbiota - genetics; Phylogeny; Sequence Alignment - statistics & numerical data; databases; bacteria; next-generation sequencing; microbiome; microbial genomics

Abstract Microbiome research has grown rapidly over the past decade, with a proliferation of new methods that seek to make sense of large, complex data sets. Here, we survey two of the primary types of methods for analyzing microbiome data: read classification and metagenomic assembly, and we review...