Package: metabCombiner
Version: 1.21.0
Date: 2024-05-23
Title: Method for Combining LC-MS Metabolomics Feature Measurements
Authors@R: c(
	   person("Hani", "Habra", email = "hhabra1@gmail.com",role = c("aut","cre")),
	   person("Alla", "Karnovsky", email = "akarnovs@med.umich.edu", role = "ths"))
License: GPL-3
Description: This package aligns LC-HRMS metabolomics datasets acquired from 
    biologically similar specimens analyzed under similar, but not necessarily 
    identical, conditions. Peak-picked and simply aligned metabolomics feature 
    tables (consisting of m/z, rt, and per-sample abundance measurements, plus 
    optional identifiers & adduct annotations) are accepted as input. The 
    package  outputs a combined table of feature pair alignments, organized 
    into groups of similar m/z, and ranked by a similarity score. Input tables 
    are assumed to be  acquired using similar (but not necessarily identical) 
    analytical methods.
Depends: R (>= 4.0) 
Imports:
    dplyr (>= 1.0),
    methods, 
    mgcv, 
    caret, 
    S4Vectors, 
    stats, 
    utils, 
    rlang, 
    graphics,
    matrixStats,
    tidyr
Suggests: 
    knitr,
    rmarkdown,
    testthat,
    BiocStyle
BugReports: https://www.github.com/hhabra/metabCombiner/issues
NeedsCompilation: yes
RoxygenNote: 7.1.1
Encoding: UTF-8
Collate: 
    'adjustData.R'
    'batchCombine.R'
    'calcScores.R'
    'check_pars.R'
    'classes.R'
    'combinerCheck.R'
    'compare_strings.R'
    'data.R'
    'detectFields.R'
    'evaluateParams.R'
    'fit_model.R'
    'form.R'
    'generics.R'
    'labelRows.R'
    'metabCombine.R'
    'metabCombiner.R'
    'metabCombiner_package_doc.R'
    'metabData.R'
    'methods-featdata.R'
    'methods-metabCombiner.R'
    'methods-metabData.R'
    'mzGroup.R'
    'params.R'
    'plot_fit.R'
    'resolveRows.R'
    'selectAnchors.R'
    'updateTables.R'
    'write2file.R'
    'zzz.R'
VignetteBuilder: knitr
biocViews: Software, MassSpectrometry, Metabolomics
LazyData: false
git_url: https://git.bioconductor.org/packages/metabCombiner
git_branch: devel
git_last_commit: 0e1b012
git_last_commit_date: 2025-10-29
Repository: Bioconductor 3.23
