SOHPIE: statistical approach via pseudo-value information and estimation for differential network analysis of microbiome data.

ABSTRACT

SUMMARY: The SOHPIE R package implements a novel functionality for "multivariable" differential co-abundance network (DN, hereafter) analyses of microbiome data. It incorporates a regression approach that adjusts for additional covariates for DN analyses. This distinguishes from previous prominent approaches in DN analyses such as MDiNE and NetCoMi which do not feature a covariate adjustment of finding taxa that are differentially connected (DC, hereafter) between individuals with different clinical and phenotypic characteristics. AVAILABILITY AND IMPLEMENTATION SOHPIE with a vignette is available on CRAN repository https//CRAN.R-project.org/package=SOHPIE and published under General Public License (GPL) version 3 license.