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 (may not be active yet) |
| 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: not available, r-release: not available, r-oldrel: not available |
| macOS binaries: | r-release (arm64): not available, r-oldrel (arm64): not available, r-release (x86_64): NeighborFinder_1.0.1.tgz, r-oldrel (x86_64): not available |
Linking:
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