Files in CeMOS-Mannheim/moleculaR
Spatial Probabilistic Mapping of Metabolite Ensembles in Mass Spectrometry Imaging
.Rbuildignore
.Rprofile
.gitignore
DESCRIPTION
LICENSE
LICENSE.md
NAMESPACE
R/S3classes.R
R/batchAnalyteSearch.R
R/batchLipidSearch.R
R/classDefinitions.R
R/createSparseMat.R
R/createSpatialWindow.R
R/downloadExData.R
R/estimateFwhm.R
R/evalspatialExpr.R
R/filterDuplicates.R
R/filterPeaks.R
R/gaussWeight.R
R/helping-functions.R
R/icon.R
R/legacy-initLipidSearch.R
R/legacy-searchLipid.R
R/loadSwissDB.R
R/manualSpatstatImport.R
R/moleculaR.R
R/normalizeIntensity.R
R/plotting-functions.R
R/probMap.R
R/readCentrData.R
R/readSingleSpect.R
R/recreateExData.R
R/runShiny.R
R/searchAnalyte.R
R/simulation-functions.R
R/subsetAnalytes.R
R/superImposeAnalytes.R
R/superimposeNoise.R
R/transformIntensity.R
R/useDefaultFwhm.R
README.md
data/processed-example-Data.RData
extras/icon-source.jpg
extras/moleculaR-icon.svg
extras/moleculaR-icon1.svg
extras/package-old.jpg
extras/package.jpg
inst/extdata/dataUrl-ibd.txt
inst/extdata/dataUrl-imzml.txt
inst/extdata/metaspace_annotations.csv
inst/extdata/pos-XIII-82492-singleSpectrum.tsv
inst/extdata/swisslipids-speciesOnly-sep2020.tsv
inst/shiny/example-app.R
inst/shiny/package-app.R
inst/shiny/www/README.md
inst/shiny/www/moleculaR-icon1.svg
man/analytePointPattern.Rd
man/batchAnalyteSearch.Rd
man/batchLipidSearch.Rd
man/createHotspotWin.Rd
man/createSparseMat.Rd
man/createSpatialWindow.Rd
man/dot-bw.scott2.Rd
man/dot-bw.spAutoCorr.Rd
man/dot-erosion.Rd
man/dot-foldChangeNorm.Rd
man/dot-getFwhm.Rd
man/dot-getMaxCurve.Rd
man/dot-isNorm.Rd
man/dot-kneedle.Rd
man/dot-medianNorm.Rd
man/dot-rmsNorm.Rd
man/dot-shrinkData.Rd
man/dot-ticNorm.Rd
man/downloadExData.Rd
man/dsc.Rd
man/estimateFwhm.Rd
man/evalSpatialExpr.Rd
man/filterDuplicates.Rd
man/filterPeaks.Rd
man/focusPlot.Rd
man/fwhm.Rd
man/gaussWeight.Rd
man/getFwhm.Rd
man/im2spp.Rd
man/initLipidSearch.Rd
man/kneePoint.Rd
man/lipidSearchList.Rd
man/loadSwissDB.Rd
man/manualSpatstatImport.Rd
man/molProbMap.Rd
man/moleculaR.Rd
man/mse.Rd
man/ncc.Rd
man/normalizeIntensity.Rd
man/plot.molProbMap.Rd
man/plotAnalyte.Rd
man/plotImg.Rd
man/probMap.Rd
man/readCentrData.Rd
man/readSingleSpect.Rd
man/recreateExData.Rd
man/runShiny.Rd
man/searchAnalyte.Rd
man/searchLipid.Rd
man/simulatespp.Rd
man/sparseIntensityMatrix.Rd
man/spp2im.Rd
man/subsetAnalytes.Rd
man/superImposeAnalytes.Rd
man/superimposeNoise.Rd
man/transformIntensity.Rd
man/useDefaultFwhm.Rd
moleculaR.Rproj
planned fixes.txt
renv.lock
renv/.gitignore
renv/activate.R
renv/settings.dcf
renv_issue.txt
vignettes/.gitignore
vignettes/figure/CPPM.plot-1.png
vignettes/figure/MPM-1.png
vignettes/figure/cppms.unsat.plot-1.png
vignettes/figure/ionImage-1.png
vignettes/figure/ions.plot.K-1.png
vignettes/figure/plotFwhm-1.png
vignettes/figure/spWindow-1.png
vignettes/figure/sppmoi-1.png
vignettes/figure/sppmoi-2.png
vignettes/moleculaR-walkthrough.R
vignettes/moleculaR-walkthrough.Rmd
vignettes/moleculaR-walkthrough.Rmd.orig
vignettes/precompile.R
vignettes/shiny-imgs/closest mz.PNG
vignettes/shiny-imgs/cpm ion generate.PNG
vignettes/shiny-imgs/cpm ion generated.PNG
vignettes/shiny-imgs/cpm lipid classes generate.PNG
vignettes/shiny-imgs/cpm lipid classes generated.PNG
vignettes/shiny-imgs/cpm lipid sat generate.PNG
vignettes/shiny-imgs/cpm lipid sat generated.PNG
vignettes/shiny-imgs/fwhm_esti.PNG
vignettes/shiny-imgs/fwhm_loaded.PNG
vignettes/shiny-imgs/mmp_generate.PNG
vignettes/shiny-imgs/mmp_generated.PNG
vignettes/shiny-imgs/package_app_load.PNG
vignettes/shiny-imgs/package_app_loaded.PNG
vignettes/shiny-imgs/progressbar.PNG
