cosmiq: cosmiq - COmbining Single Masses Into Quantities

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.

AuthorDavid Fischer <dajofischer@googlemail.com>, Christian Panse <cp@fgcz.ethz.ch>, Endre Laczko <endre.laczko@fgcz.uzh.ch>
Date of publicationNone
MaintainerDavid Fischer <dajofischer@googlemail.com>, Christian Panse <cp@fgcz.ethz.ch>
LicenseGPL-3
Version1.8.0
http://www.bioconductor.org/packages/devel/bioc/html/cosmiq.html

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Files

cosmiq/DESCRIPTION
cosmiq/NAMESPACE
cosmiq/NEWS
cosmiq/R
cosmiq/R/combine_spectra.R cosmiq/R/cosmiq.R cosmiq/R/create_datamatrix.R cosmiq/R/eicmatrix.R cosmiq/R/peakdetection.R cosmiq/R/quantify_combined.R cosmiq/R/retention_time.R
cosmiq/build
cosmiq/build/vignette.rds
cosmiq/inst
cosmiq/inst/Dockerfile
cosmiq/inst/doc
cosmiq/inst/doc/cosmiq.R
cosmiq/inst/doc/cosmiq.Rnw
cosmiq/inst/doc/cosmiq.pdf
cosmiq/inst/unitTests
cosmiq/inst/unitTests/test_cosmiq.R
cosmiq/man
cosmiq/man/combine_spectra.Rd cosmiq/man/cosmiq.Rd cosmiq/man/create_datamatrix.Rd cosmiq/man/eicmatrix.Rd cosmiq/man/peakdetection.Rd cosmiq/man/quantify_combined.Rd cosmiq/man/retention_time.Rd
cosmiq/src
cosmiq/src/Makevars
cosmiq/src/util.c
cosmiq/tests
cosmiq/tests/runTests.R
cosmiq/vignettes
cosmiq/vignettes/cosmiq.Rnw
cosmiq/vignettes/cosmiq.bib

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