Package: MSclassifR 0.3.3
Alexandre Godmer
MSclassifR: Automated Classification of Mass Spectra
Functions to classify mass spectra in known categories, and to determine discriminant mass-over-charge values. It includes easy-to-use functions for pre-processing mass spectra, functions to determine discriminant mass-over-charge values (m/z) from a library of mass spectra corresponding to different categories, and functions to predict the category (species, phenotypes, etc.) associated to a mass spectrum from a list of selected mass-over-charge values. Three vignettes illustrating how to use the functions of this package from real data sets are also available online to help users: <https://agodmer.github.io/MSclassifR_examples/Vignettes/Vignettemsclassifr_Ecrobiav3.html>, <https://agodmer.github.io/MSclassifR_examples/Vignettes/Vignettemsclassifr_Klebsiellav3.html> and <https://agodmer.github.io/MSclassifR_examples/Vignettes/Vignettemsclassifr_DAv3.html>.
Authors:
MSclassifR_0.3.3.tar.gz
MSclassifR_0.3.3.tar.gz(r-4.5-noble)MSclassifR_0.3.3.tar.gz(r-4.4-noble)
MSclassifR_0.3.3.tgz(r-4.4-emscripten)MSclassifR_0.3.3.tgz(r-4.3-emscripten)
MSclassifR.pdf |MSclassifR.html✨
MSclassifR/json (API)
# Install 'MSclassifR' in R: |
install.packages('MSclassifR', repos = c('https://cran.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/agodmer/msclassifr_examples/issues
- CitrobacterRKImetadata - Metadata of mass spectra corresponding to the bacterial species _Citrobacter_ sp. from The Robert Koch-Institute (RKI) database of microbial MALDI-TOF mass spectra
- CitrobacterRKIspectra - Mass spectra corresponding to the bacterial species _Citrobacter_ sp. from The Robert Koch-Institute (RKI) database of microbial MALDI-TOF mass spectra
Last updated 1 years agofrom:341ff2b319. Checks:OK: 1 NOTE: 1. Indexed: yes.
Target | Result | Date |
---|---|---|
Doc / Vignettes | OK | Dec 24 2024 |
R-4.5-linux | NOTE | Dec 24 2024 |
Exports:LogRegPeakDetectionPlotSpectraPredictFastClassPredictLogRegSelectionVarSelectionVarStatSignalProcessing
Dependencies:abindautomapbackportsbase64encBBmiscBHBiobaseBiocGenericsBiocParallelbitbit64bootbroombslibcachemcarcarDatacaretcheckmateclassclassIntclicliprclockcodetoolscolorspacecorpcorcowplotcp4pcpp11crayondata.tableDBIDEoptimRDerivdiagramdigestdoBydoParalleldplyre1071ellipseevaluatefansifarverfastmapFNNfontawesomeforcatsforeachformatRFormulafsfutile.loggerfutile.optionsfuturefuture.applyfuzzyjoingeeMgeepackgenericsgeosphereggformulaggplot2ggrepelggridgesglmnetglobalsgluegowergridExtragsignalgstatgtablehardhathavenhighrhmshtmltoolshtmlwidgetsigraphintervalsipredisobanditeratorsjquerylibjsonliteKernSmoothkinship2knitrlabelinglabelledlambda.rlatticelavalifecyclelimmalistenvlme4lubridatemagrittrMALDIquantMALDIquantForeignMALDIrppaMASSmathjaxrMatrixMatrixModelsmatrixStatsMBAmclustmemoiseMESSmetapmgcvmicrobenchmarkmimeminqamixOmicsmltoolsmnormtModelMetricsmodelrmosaicCoremultcompmultitapermulttestmunsellmutossmvtnormnlmenloptrnnetnumDerivparallellyparallelMappbkrtestperformanceEstimationpillarpkgconfigplotrixplyrpracmaprettyunitspROCprodlimprogressprogressrproxypurrrqqconfquadprogquantregqvalueR6randomForestrappdirsrARPACKrbibutilsRColorBrewerRcppRcppArmadilloRcppEigenRdpackreadBrukerFlexDatareadMzXmlDatareadrrecipesreshapereshape2rglrlangrmarkdownrobustbaserpartRSpectras2sandwichsassscalessfsftimeshapesignalsnsnowspspacetimeSparseMSQUAREMstarsstatmodstringdiststringistringrsurvivalTFisherTH.datatibbletidyrtidyselecttimechangetimeDatetinytextzdbUBLunitsutf8vctrsviridisLitevitavroomVSURFwaveslimwithrwkxfunxgboostXMLxtsyamlzoo