Assessment of statistical methods from single cell bulk RNA-seq and metagenomics applied to microbiome data

摘要

Starting from 41 Projects collected in 2 manually curated data repositories (HMP16SData and curatedMetagenomicData Bioconductor packages), 18 16S and 82 WMS datasets were downloaded. Biological samples belonged to several body sites (e.g., oral cavity), body subsites (e.g., tongue dorsum), and conditions (e.g., healthy vs. disease). Feature per sample count tables were used in order to evaluate several objectives: goodness of fit (GOF) for 5 parametric distributions, type I error control, concordance, and power for 18 differential abundance detection methods. Methods developed for metagenomics, bulk-RNAseq, or sc-RNAseq were ranked using empirical evaluations of the above-cited objectives