ZicoSeq is a permutation-based framework for differential abundance analysis of Zero-inflated Compositional Sequencing data such as microbiome data. Currently, it has the following components:
Winsorization to decrease the influence of outliers
Posterior sampling to impute zeros based on a beta mixture prior
Multiple-stage normalization to address compositional effects
An omnibus test to address diverse taxa-covariate relationships
Permutation-based FDR control to address taxa correlations and multiple testing