Analysis of sequencing strategies and tools for taxonomic annotation: Defining standards for progressive metagenomics.

ABSTRACT: Metagenomics research has recently thrived due to DNA sequencing technologies improvement, driving the emergence of new analysis tools and the growth of taxonomic databases. However, there is no all-purpose strategy that can guarantee the best result for a given project and there are several combinations of software, parameters and databases that can be tested. Therefore, we performed an impartial comparison, using statistical measures of classification for eight bioinformatic tools and four taxonomic databases, defining a benchmark framework to evaluate each tool in a standardized context. Using in silico simulated data for 16S rRNA amplicons and whole metagenome shotgun data, we compared the results from different software and database combinations to detect biases related to algorithms

SUBMITTER: Escobar-Zepeda A 

PROVIDER: S-EPMC6089906 | biostudies-literature | 2018 Aug

REPOSITORIES: biostudies-literature