A Novel Sparse Compositional Technique Reveals Microbial Perturbations Article Swipe

PDF

Related Concepts

Beta diversity Microbiome Salient Compositional data Robustness (evolution) Metric (unit) Computer science Curse of dimensionality Dimensionality reduction Data mining Pattern recognition (psychology) Artificial intelligence Biology Machine learning Ecology Bioinformatics Species richness Genetics Economics Gene Operations management

Cameron Martino , James T. Morton , Clarisse Marotz , Luke Thompson , Anupriya Tripathi , Rob Knight , Karsten Zengler ·

YOU? · · 2019 · Open Access · · DOI: https://doi.org/10.1128/msystems.00016-19 · OA: W2914348147

By accounting for the sparse compositional nature of microbiome data sets, robust Aitchison PCA can yield high discriminatory power and salient feature ranking between microbial niches. The software to perform this analysis is available under an open-source license and can be obtained at https://github.com/biocore/DEICODE ; additionally, a QIIME 2 plugin is provided to perform this analysis at https://library.qiime2.org/plugins/q2-deicode .