PubMatrixR: PubMed Pairwise Co-Occurrence Matrix Construction and
Visualization
Queries the 'NCBI' (National Center for Biotechnology Information)
Entrez 'E-utilities' API to count pairwise co-occurrences between two sets
of terms in 'PubMed' or 'PubMed Central'. It returns a matrix-like data
frame of publication counts and can export hyperlink-enabled results in
CSV or ODS format. The package also provides heatmap helpers for
exploratory visualization of overlap patterns. Based on the method described
in Becker et al. (2003) "PubMatrix: a tool for multiplex literature mining"
<doi:10.1186/1471-2105-4-61>.
| Version: |
1.0.0 |
| Depends: |
R (≥ 4.1.0) |
| Imports: |
pbapply, pheatmap, readODS, xml2 |
| Suggests: |
dplyr, ggplot2, kableExtra, knitr, rmarkdown, testthat (≥
3.0.0) |
| Published: |
2026-03-12 |
| DOI: |
10.32614/CRAN.package.PubMatrixR (may not be active yet) |
| Author: |
Tyler Laird [aut],
Enrique Toledo 
[aut, cre] |
| Maintainer: |
Enrique Toledo <enriquetoledo at gmail.com> |
| BugReports: |
https://github.com/ToledoEM/PubMatrixR-v2/issues |
| License: |
MIT + file LICENSE |
| URL: |
https://github.com/ToledoEM/PubMatrixR-v2 |
| NeedsCompilation: |
no |
| Citation: |
PubMatrixR citation info |
| Materials: |
README, NEWS |
| CRAN checks: |
PubMatrixR results |
Documentation:
Downloads:
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