Title |
MetaID: A novel method for identification and quantification of metagenomic samples
|
---|---|
Published in |
BMC Genomics, December 2013
|
DOI | 10.1186/1471-2164-14-s8-s4 |
Pubmed ID | |
Authors |
Satish M Srinivasan, Chittibabu Guda |
Abstract |
Advances in next-generation sequencing (NGS) technology has provided us with an opportunity to analyze and evaluate the rich microbial communities present in all natural environments. The shorter reads obtained from the shortgun technology has paved the way for determining the taxonomic profile of a community by simply aligning the reads against the available reference genomes. While several computational methods are available for taxonomic profiling at the genus- and species-level, none of these methods are effective at the strain-level identification due to the increasing difficulty in detecting variation at that level. Here, we present MetaID, an alignment-free n-gram based approach that can accurately identify microorganisms at the strain level and estimate the abundance of each organism in a sample, given a metagenomic sequencing dataset. |
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