Package: BIDistances
Type: Package
Title: Bioinformatic Distances
Version: 1.0.1
Date: 2026-08-19
Authors@R: c(
    person(
        "Quirin", "Stier",
        email = "Quirin_Stier@gmx.de",
        role = c("aut", "rev", "ctb"),
        comment = c(ORCID = "0000-0002-7896-4737")
    ),
    person(
        "Michael", "Thrun",
        email = "m.thrun@gmx.net",
        role = c("aut", "cre"),
        comment = c(ORCID = "0000-0001-9542-5543")
    ),
    person(
        "Luca", "Brinkmann",
        role = "ctb"
    )
  )
Maintainer: Michael Thrun <m.thrun@gmx.net>
Description: Provides a unified interface for computing, comparing, and
        examining distances, dissimilarities, divergences, and selected
        similarities for bioinformatics data. The core installation
        exposes 60 canonical named routes for numerical data and more
        than 90 when the suggested 'philentropy' backend is installed;
        aliases, user-defined functions, and mixed-data combinations
        are not included in these counts. Weighted Minkowski distances
        can be computed through 'parallelDist', an internal multicore
        implementation, or optional 'OpenCL' kernels, while the
        established weighted Euclidean GPU implementation is retained
        as the optimized p = 2 route. The package also supports
        theory-guided comparison of distance distributions for
        clustering, explicit mathematical property classifications,
        mixed-data constructions through 'manydist', and a specialized
        Gene Ontology-derived TF-IDF distance.
Depends: R (>= 3.5.0)
Imports: Rcpp (>= 1.0.8), RcppParallel (>= 5.1.1), parallelDist,
        parallel, DataVisualizations, diptest, e1071, pracma, ggplot2
Suggests: knitr, rmarkdown, OpenCL, transport, ineq, ScatterDensity,
        memshare, philentropy (>= 0.10.0), dtw, proxy, manydist (>=
        0.5.0), testthat (>= 3.0.0)
LinkingTo: Rcpp, RcppParallel (>= 5.1.1)
NeedsCompilation: yes
SystemRequirements: GNU make, OpenCL library (optional, for GPU
        acceleration), pandoc (>=1.12.3, needed for vignettes)
License: GPL-3
LazyLoad: yes
LazyData: TRUE
Encoding: UTF-8
VignetteBuilder: knitr
Config/testthat/edition: 3
BugReports: https://github.com/Mthrun/BIDistances/issues
Config/pak/sysreqs: cmake make libicu-dev ocl-icd-opencl-dev
Repository: https://mthrun.r-universe.dev
Date/Publication: 2026-08-20 04:48:15 UTC
RemoteUrl: https://github.com/mthrun/bidistances
RemoteRef: HEAD
RemoteSha: 9d423a51a09a2330ad262d7fdc1116a559c9502a
Packaged: 2026-10-19 08:53:17 UTC; root
Author: Quirin Stier [aut, rev, ctb] (ORCID:
    <https://orcid.org/0000-0002-7896-4737>),
  Michael Thrun [aut, cre] (ORCID:
    <https://orcid.org/0000-0001-9542-5543>),
  Luca Brinkmann [ctb]