NeighborFinder: Find Neighbor Species of a Bacteria of Interest in the Human Gut Microbiota

Implementation of the local approach described in Sola et al., 2026 <doi:10.64898/2025.12.05.692507> to identify companion species of a bacteria of interest. From several abundance tables of metagenomic data, 'NeighborFinder' suggests a shortlist of companion species based on the integration of results. A visualization via a network is proposed.

Version:	1.0.1
Depends:	R (≥ 3.5.0)
Imports:	dplyr, GGally, glmnet, glue, igraph, magrittr, Matrix, mvtnorm, network, purrr, rlang, sna, stats, stringr, tibble, tidyr, utils
Suggests:	knitr, rmarkdown, testthat
Published:	2026-06-30
DOI:	10.32614/CRAN.package.NeighborFinder
Author:	Mathilde Sola [aut, cre], Mahendra Mariadassou [aut], Magali Berland [aut]
Maintainer:	Mathilde Sola <mathilde.sola at inrae.fr>
License:	MIT + file LICENSE
NeedsCompilation:	no
Materials:	README
CRAN checks:	NeighborFinder results

Documentation:

Reference manual:	NeighborFinder.html , NeighborFinder.pdf
Vignettes:	Technical Report (source, R code) Detailed example (source, R code)

Downloads:

Package source:	NeighborFinder_1.0.1.tar.gz
Windows binaries:	r-devel: NeighborFinder_1.0.1.zip, r-release: NeighborFinder_1.0.1.zip, r-oldrel: NeighborFinder_1.0.1.zip
macOS binaries:	r-release (arm64): NeighborFinder_1.0.1.tgz, r-oldrel (arm64): NeighborFinder_1.0.1.tgz, r-release (x86_64): NeighborFinder_1.0.1.tgz, r-oldrel (x86_64): NeighborFinder_1.0.1.tgz

Linking:

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