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Updated: Jul 7, 2025

A Data-Driven Approach to Quantifying Immune States in Sepsis
Published on: February 7, 2025
SOHPIE: statistical approach via pseudo-value information and estimation for differential network analysis of
1Department of Population Health Science and Policy, Icahn School of Medicine at Mount Sinai, New York, NY 10029, United States.
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.
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