Package: CooccurrenceAffinity
Type: Package
Title: Affinity in Co-Occurrence Data
Version: 2.0.0
Date: 2026-01-27
Authors@R: c(
    person("Kumar", "Mainali", role = c("aut", "cre"), email = "kpmainali@gmail.com"),
    person("Eric", "Slud", role = c("aut"))
    )
Description: Computes a novel metric of affinity between two entities based on their co-occurrence 
  (using binary presence/absence data). The metric and its maximum likelihood estimator (alpha hat) were advanced in 
  Mainali, Slud, et al, 2021 <doi:10.1126/sciadv.abj9204>. Four types of confidence intervals and median interval
  were developed in Mainali and Slud, 2022 <doi:10.1101/2022.11.01.514801>. The `finches` dataset is 
  bundled with the package.
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
Depends: R (>= 4.1), BiasedUrn (>= 2.0.9)
Imports: cowplot, ggplot2, plyr, reshape
URL: https://github.com/kpmainali/CooccurrenceAffinity
BugReports: https://github.com/kpmainali/CooccurrenceAffinity/issues
RoxygenNote: 7.3.1
NeedsCompilation: no
Packaged: 2026-02-12 06:38:50 UTC; kpmainali
Author: Kumar Mainali [aut, cre],
  Eric Slud [aut]
Maintainer: Kumar Mainali <kpmainali@gmail.com>
Repository: CRAN
Date/Publication: 2026-02-12 08:30:02 UTC
Built: R 4.6.0; ; 2026-04-26 12:25:00 UTC; unix
