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
Roxygen: list(markdown = 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
Repository: https://kpmainali.r-universe.dev
Date/Publication: 2026-01-28 23:51:40 UTC
RemoteUrl: https://github.com/kpmainali/cooccurrenceaffinity
RemoteRef: HEAD
RemoteSha: 9bb0d218071ce4096039a3fc7d537f9210a27208
NeedsCompilation: no
Packaged: 2026-07-15 05:28:19 UTC; root
Author: Kumar Mainali [aut, cre],
  Eric Slud [aut]
Maintainer: Kumar Mainali <kpmainali@gmail.com>