Files in IFIproteomics/LFQbench
Label Free Quantitation benchmark package
.Rbuildignore
.gitignore
.travis.yml
DESCRIPTION
LFQbench.Rproj
LICENSE.md
NAMESPACE
R/fswe.cfg.r
R/fswe.cfg.softwares.r
R/fswe.com.r
R/fswe.generate_reports.r
R/fswe.scale_intensities.R
R/lfqbench.access.r
R/lfqbench.batch.r
R/lfqbench.cfg.r
R/lfqbench.com.r
R/lfqbench.plot.r
R/lfqbench.proc.r
R/utils.math.R
README.md
ext/data/vignette_examples/hye110/ISOQuant_pep_2016-010_HYE110_UDMSE_peptide_quantification_report.csv
ext/data/vignette_examples/hye124/PeakView_TTOF6600_64w_benchmark_example.xlsx
ext/data/vignette_examples/hye124/Spectronaut_TTOF6600_64w_example.tsv
inst/doc/LFQbench.R
inst/doc/LFQbench.Rmd
inst/doc/LFQbench.html
inst/doc/LFQbench.pdf
inst/scripts/.gitignore
inst/scripts/ExperimentSimulation.R
logo.png
logo_stacked.png
man/FSWE.addModification.Rd
man/FSWE.addSoftwareConfiguration.Rd
man/FSWE.generateReports.Rd
man/FSWE.init.defaultSoftwares.Rd
man/FSWE.initConfiguration.Rd
man/FSWE.listModifications.Rd
man/FSWE.scaleIntensities.Rd
man/FSWE.setDatasetInjectionNames.Rd
man/FSWE.setSpeciesTags.Rd
man/FSWE.simExperiment.Rd
man/FSWE.switchSoftwareConfiguration.Rd
man/LFQbench.batchProcessFiles.Rd
man/LFQbench.batchProcessRootFolder.Rd
man/LFQbench.changeConfiguration.Rd
man/LFQbench.explainMetrics.Rd
man/LFQbench.getMetrics.Rd
man/LFQbench.initConfiguration.Rd
man/LFQbench.plotProteinDispersionBySample.Rd
man/LFQbench.plotProteinDispersionBySpecies.Rd
man/LFQbench.plotResultSet.Rd
man/LFQbench.plotSampleComposition.Rd
man/LFQbench.plotSpeciesLegends.Rd
man/LFQbench.plotToFile.Rd
man/LFQbench.processConfig.Rd
man/LFQbench.processDocSet.Rd
man/LFQbench.processFile.Rd
man/LFQbench.setDataRootFolder.Rd
man/LFQbench.showAllSpeciesQC.Rd
man/LFQbench.showDistributionDensityPlot.Rd
man/LFQbench.showLogRatioBoxPlot.Rd
man/LFQbench.showMetrics.Rd
man/LFQbench.showQuantBarPlot.Rd
man/LFQbench.showScatterAndBoxPlot.Rd
man/LFQbench.showScatterAndDensityPlot.Rd
man/LFQbench.showScatterPlot.Rd
man/LFQbench.showSingleSpeciesQC.Rd
man/addAxes.Rd
man/addXLab.Rd
man/addYLab.Rd
man/auc.Rd
man/avgNA.Rd
man/avg_top_n.Rd
man/createNumericPairs.Rd
man/emptyPlot.Rd
man/evalCommandLineArguments.Rd
man/expandRange.Rd
man/fixFileExt.Rd
man/getCombinedLogRatios.Rd
man/getCombinedProteinRSDs.Rd
man/getFileExt.Rd
man/getOutlierIdx.Rd
man/getQuantileAccuracy.Rd
man/getQuantilePrecision.Rd
man/getQuantileSeparation.Rd
man/getRangedAccuracy.Rd
man/getRangedPrecision.Rd
man/getRangedSepRate.Rd
man/getSepRate.Rd
man/guessOrganism.Rd
man/guessSep.Rd
man/guessSoftwareSource.Rd
man/loadLibrary.Rd
man/logIdStatistics.Rd
man/makeDocSet.Rd
man/makeEverythingInOneFolderDocSet.Rd
man/makeScatter.Rd
man/median_all.Rd
man/median_quench.Rd
man/mkdir.Rd
man/moveFiles.Rd
man/plotSpeciesLegend.Rd
man/qboxplot.Rd
man/rms.Rd
man/saveIDs.Rd
man/saveLogRatios.Rd
man/saveMetrics.Rd
man/saveSampleCVs.Rd
man/saveSampleMeans.Rd
man/saveSpeciesSeparation.Rd
man/single_hits.Rd
man/spiner.Rd
man/stopHere.Rd
man/sumNA.Rd
man/sum_top_n.Rd
man/take1stentry.Rd
vignettes/LFQbench.R
vignettes/LFQbench.Rmd
