Package: metabCombiner
Version: 1.15.2
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: d248824
git_last_commit_date: 2024-05-29
Repository: Bioconductor 3.20
Date/Publication: 2024-05-29
Packaged: 2024-05-29 19:59:25 UTC; biocbuild
Author: Hani Habra [aut, cre],
  Alla Karnovsky [ths]
Maintainer: Hani Habra <hhabra1@gmail.com>
Built: R 4.4.0; aarch64-apple-darwin20; 2024-05-30 08:53:45 UTC; unix
