Package: metabinR
Type: Package
Title: Abundance and Compositional Based Binning of Metagenomes
Version: 2.1.0
biocViews: Classification, Clustering, Microbiome, Sequencing, Software
Authors@R: 
    c(person(given = "Anestis",
             family = "Gkanogiannis",
             role = c("aut", "cre"),
             email = "anestis@gkanogiannis.com",
             comment = c(ORCID = "0000-0002-6441-0688"))
    )
Description: Provide functions for performing abundance and
        compositional based binning on metagenomic samples, directly
        from FASTA or FASTQ files. Functions are implemented in Java
        and called via rJava. Parallel implementation that operates
        directly on input FASTA/FASTQ files for fast execution. Inputs
        may be file paths or Biostrings/ShortRead sequence objects;
        results are returned as a MetabinResult S4 object wrapping
        cluster assignments, algorithm parameters, and input metadata.
License: GPL-3
Encoding: UTF-8
Language: en-US
Depends: R (>= 4.4), methods
Imports: BiocGenerics, BiocParallel, Biostrings, checkmate, cli, rJava,
        S4Vectors, ShortRead, utils
SystemRequirements: Java (>= 11)
RoxygenNote: 7.3.3
URL: https://github.com/gkanogiannis/metabinR
BugReports: https://github.com/gkanogiannis/metabinR/issues
Suggests: BiocStyle, covr, cvms, data.table, dplyr, ggplot2, gridExtra,
        knitr, R.utils, rmarkdown, sabre, spelling, testthat (>= 3.0.0)
VignetteBuilder: knitr
Config/testthat/edition: 3
Config/pak/sysreqs: make default-jdk libbz2-dev libjpeg-dev liblzma-dev
        libpng-dev xz-utils zlib1g-dev
Repository: https://bioc.r-universe.dev
Date/Publication: 2026-04-28 12:59:25 UTC
RemoteUrl: https://github.com/bioc/metabinR
RemoteRef: HEAD
RemoteSha: 58061ec556a15c2fcce4913cda4f9687c70f0008
NeedsCompilation: no
Packaged: 2026-06-21 09:23:40 UTC; root
Author: Anestis Gkanogiannis [aut, cre] (ORCID:
    <https://orcid.org/0000-0002-6441-0688>)
Maintainer: Anestis Gkanogiannis <anestis@gkanogiannis.com>