Package: philr
Type: Package
Title: Phylogenetic partitioning based ILR transform for metagenomics
        data
Version: 1.39.0
Date: 2026-04-01
Authors@R: 
    c(person("Justin", "Silverman", role=c("aut", "cre"),
                     email = "jsilve24@gmail.com"),
      person(given = "Leo", family = "Lahti", role = c("ctb"),
             comment = c(ORCID = "0000-0001-5537-637X")))
Description: PhILR is short for Phylogenetic Isometric Log-Ratio
        Transform. This package provides functions for the analysis of
        compositional data (e.g., data representing proportions of
        different variables/parts). Specifically this package allows
        analysis of compositional data where the parts can be related
        through a phylogenetic tree (as is common in microbiota survey
        data) and makes available the Isometric Log Ratio transform
        built from the phylogenetic tree and utilizing a weighted
        reference measure.
License: GPL-3
RoxygenNote: 7.3.3
Imports: ape, phangorn, tidyr, ggplot2, ggtree, methods
Suggests: testthat, knitr, ecodist, rmarkdown, BiocStyle, phyloseq,
        SummarizedExperiment, TreeSummarizedExperiment, glmnet, dplyr,
        mia
VignetteBuilder: knitr
biocViews: ImmunoOncology, Sequencing, Microbiome, Metagenomics,
        Software
URL: https://github.com/jsilve24/philr
BugReports: https://github.com/jsilve24/philr/issues
Encoding: UTF-8
Config/pak/sysreqs: libcairo2-dev cmake libfontconfig1-dev
        libfreetype6-dev libglpk-dev make libicu-dev libpng-dev
        libuv1-dev libxml2-dev
Repository: https://bioc.r-universe.dev
Date/Publication: 2026-04-28 12:44:07 UTC
RemoteUrl: https://github.com/bioc/philr
RemoteRef: HEAD
RemoteSha: cd369368edb6ca6f5a32faf60cb645605c6af190
NeedsCompilation: no
Packaged: 2026-07-03 16:12:58 UTC; root
Author: Justin Silverman [aut, cre],
  Leo Lahti [ctb] (ORCID: <https://orcid.org/0000-0001-5537-637X>)
Maintainer: Justin Silverman <jsilve24@gmail.com>