Synonyms
Definition
Binning is the process to categorize sequences into different groups based on compositional features or sequence similarity or both of them.
Introduction
As metagenomes are typically composed of sequences from various species, how to categorize these sequences into groups can radically affect the accuracy and sensitivity of downstream analyses. Thus, the sequence binning is a critical step in the early process of metagenomic analysis pipeline. Several binning methods employing different strategies have been proposed. For example, BLAST homology search helps to identify sequences of related species; kmer (Sandberg et al. 2001), self-organizing map (SOM) (Abe et al. 2003), and TETRA (Teeling et al. 2004b) cluster sequences by similar compositional features, i.e., oligonucleotide frequency; PhyloPythia (McHardy et al. 2007), a support vector machine implementation, categorizes sequences based on both pattern similarity and oligonucleotide...
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Tseng, CH., Chan, CK.K., Hsu, A.L., Halgamuge, S.K., Tang, SL. (2014). Binning Sequences Using Very Sparse Labels Within a Metagenome. In: Nelson, K. (eds) Encyclopedia of Metagenomics. Springer, New York, NY. https://doi.org/10.1007/978-1-4614-6418-1_750-5
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DOI: https://doi.org/10.1007/978-1-4614-6418-1_750-5
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