Resources

ConQuR: Batch effects removal for microbiome data via conditional quantile regression. R. 

DeepEn-Phy: Deep ensemble learning over the microbial phylogenetic tree. Python.

MOSAIC: A pipeline for microbiome studies analytical integration and correction. Python, R, Shell.

SurvBal: Compositional microbiome balances for survival outcomes. [Shiny App]. R.

WEE: Weighted estimated equation approaches for secondary analysis in case-control studies. R.

ZINQ: Powerful and robust non-parametric association testing for microbiome data via a zero-inflated quantile approach. R.

ZINQ-L: A zero-inflated quantile approach for differential abundance analysis of longitudinal microbiome data. R.

ZIQ: Statistical inference in quantile regression for zero-inflated outcomes. R.

ZIQRank: Zero-inflated quantile rank-score based test for scRNA-seq differential gene expression analysis. R.