J. Gregory Caporaso

Optimizing taxonomic classification of marker-gene amplicon sequences with QIIME 2’s q2-feature-classifier plugin

Taxonomic classification of marker-gene sequences is an important step in microbiome analysis. We present q2-feature-classifier (https://github.com/qiime2/q2-feature-classifier)...

QIIME allows analysis of high-throughput community sequencing data

Stability of operational taxonomic units: an important but neglected property for analyzing microbial diversity

As a compromise to the factors listed above, we propose using an open-reference method to enhance OTU stability. This type of method clusters sequences against a database and in...

Predictive functional profiling of microbial communities using 16S rRNA marker gene sequences

Global patterns of 16S rRNA diversity at a depth of millions of sequences per sample

The ongoing revolution in high-throughput sequencing continues to democratize the ability of small groups of investigators to map the microbial component of the biosphere. In pa...