Package: cosmiq
Type: Package
Title: cosmiq - COmbining Single Masses Into Quantities
Version: 1.46.0
Authors@R: c(person("David", "Fischer",
    email = "dajofischer@googlemail.com",
    role = c("aut", "cre")),
    person("Christian", "Panse",
    email = "cp@fgcz.ethz.ch",
    role = c("aut"),
    comment = c(ORCID = "0000-0003-1975-3064")),
    person("Endre", "Laczko",
    email = "cp@fgcz.ethz.ch",
    role = c("ctb")))
Depends: R (>= 3.6), Rcpp
Imports: pracma, xcms, MassSpecWavelet, faahKO
Suggests: RUnit, BiocGenerics, BiocStyle
Description: cosmiq is a tool for the preprocessing of liquid- or gas -
        chromatography mass spectrometry (LCMS/GCMS) data with a focus
        on metabolomics or lipidomics applications. To improve the
        detection of low abundant signals, cosmiq generates master maps
        of the mZ/RT space from all acquired runs before a peak
        detection algorithm is applied. The result is a more robust
        identification and quantification of low-intensity MS signals
        compared to conventional approaches where peak picking is
        performed in each LCMS/GCMS file separately. The cosmiq package
        builds on the xcmsSet object structure and can be therefore
        integrated well with the package xcms as an alternative
        preprocessing step.
License: GPL-3
URL: http://www.bioconductor.org/packages/devel/bioc/html/cosmiq.html
Collate: combine_spectra.R peakdetection.R eicmatrix.R retention_time.R
        quantify_combined.R create_datamatrix.R cosmiq.R
biocViews: ImmunoOncology, MassSpectrometry, Metabolomics
Config/pak/sysreqs: cmake libglpk-dev make libicu-dev libuv1-dev
        libxml2-dev libnetcdf-dev libssl-dev zlib1g-dev
Repository: https://bioc-release.r-universe.dev
Date/Publication: 2026-04-28 12:39:13 UTC
RemoteUrl: https://github.com/bioc/cosmiq
RemoteRef: RELEASE_3_23
RemoteSha: 0cb816f4e387cfa4207887c40c86b08c2fcd8646
NeedsCompilation: yes
Packaged: 2026-05-03 16:20:16 UTC; root
Author: David Fischer [aut, cre],
  Christian Panse [aut] (ORCID: <https://orcid.org/0000-0003-1975-3064>),
  Endre Laczko [ctb]
Maintainer: David Fischer <dajofischer@googlemail.com>
Built: R 4.6.0; x86_64-w64-mingw32; 2026-05-03 16:23:20 UTC; windows
Archs: x64
