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

Nicholas A. Bokulich, Benjamin D. Kaehler, Jai Ram Rideout, +5

Microbiome

QIIME 2: Reproducible, interactive, scalable, and extensible microbiome data science

Evan Bolyen, Jai Ram Rideout, Matthew R. Dillon, +105

Qiime 2DysbiosisEngineeringBiological DatabaseData Science +12

American Gut: an Open Platform for Citizen Science Microbiome Research

Daniel McDonald, Embriette R. Hyde, Justine W. Debelius, +163

mSystems

QIIME 2: Reproducible, interactive, scalable, and extensible microbiome data science

Evan Bolyen, Jai Ram Rideout, Matthew R. Dillon, +106

Qiime 2DysbiosisEngineeringBiological DatabaseData Science +12

QIIME 2 Enables Comprehensive End‐to‐End Analysis of Diverse Microbiome Data and Comparative Studies with Publicly Available Data

Mehrbod Estaki, Lingjing Jiang, Nicholas A. Bokulich, +11

Current Protocols in Bioinformatics

Bioinformatics DatabaseHigh Throughput SequencingMicrobiome BiologyPopular Qiime PlatformMicrobial Ecology +21

q2-longitudinal: Longitudinal and Paired-Sample Analyses of Microbiome Data

Nicholas A. Bokulich, Matthew R. Dillon, Yilong Zhang, +5

mSystems

q2-sample-classifier: machine-learning tools for microbiome classification and regression

Nicholas A. Bokulich, Matthew R. Dillon, Evan Bolyen, +3

The Journal of Open Source Software

Microbial DiversityQiime 2EngineeringTranslational BioinformaticsComputational Biology +10

QIIME 2: Reproducible, interactive, scalable, and extensible microbiome data science

Evan Bolyen, Jai Ram Rideout, Matthew R. Dillon, +106

Qiime 2DysbiosisEngineeringBiological DatabaseData Science +12

ghost-tree: creating hybrid-gene phylogenetic trees for diversity analyses

Jennifer Fouquier, Jai Ram Rideout, Evan Bolyen, +6

Microbiome

Keemei: cloud-based validation of tabular bioinformatics file formats in Google Sheets

Jai Ram Rideout, John Chase, Evan Bolyen, +4

GigaScience