Files in kroganlab/artMS
Analytical R tools for Mass Spectrometry

.Rbuildignore
.gitignore
.travis.yml
DESCRIPTION
LICENSE
NAMESPACE
R/.Rapp.history
R/MSstats_functions.R R/analysisQuantifications.R R/annotations.R R/avg_intensity_RT.R R/checkIfFile.R R/data.R R/enrichments.R R/evidenceQC.R R/evidenceToMISTformat.R R/evidenceToSaintExpressFormat.R R/filterOnNumUnique.R R/getMSstatsformat.R R/interaction_overlap.R R/main.R R/mq2mss_PTM.R R/ms2mss.R R/msstat_summary.R R/plots.R R/proteinToSiteConversion.R R/read_evidence_file.R R/replicatePlots.R R/resultsHeatmap.R R/runMSstats.R R/select_ref.R R/volcanoPlot.R R/writeExtras.R README.md
codecov.yml
data-raw/artms_config.yaml
data-raw/createData.R
data-raw/random_file.txt
data/ph_evidence.Rdata
data/ph_keys.Rdata
data/randomDF.Rdata
man/Extras.annotate.Rd man/artms_EnrichmentPlotHeatmaps.Rd man/artms_RemoveProtBelowThres.Rd man/artms_SILACtoLong.Rd man/artms_analysisQuantifications.Rd man/artms_annotateSpecie.Rd man/artms_annotationUniprot.Rd man/artms_castMaxQToWide.Rd man/artms_castMaxQToWidePTM.Rd man/artms_checkRawFileColumnName.Rd man/artms_dataPlots.Rd man/artms_enrichForComplexes.Rd man/artms_enrichLog2fc.Rd man/artms_enrichProfiler.Rd man/artms_evidenceQC.Rd man/artms_evidenceToMISTformat.Rd man/artms_evidenceToSaintExpressFormat.Rd man/artms_filterData.Rd man/artms_filterMaxqData.Rd man/artms_foldComplexEnrichment.Rd man/artms_generatePhSiteExtended.Rd man/artms_getMSstatsFormat.Rd man/artms_getPCAplots.Rd man/artms_imputeMissingValues.Rd man/artms_loadModelQCstrict.Rd man/artms_main.Rd man/artms_mapUniprot2entrezGeneName.Rd man/artms_mergeAbNbr.Rd man/artms_mergeChangesNbr.Rd man/artms_mergeEvidenceKeysByFiles.Rd man/artms_mergeMaxQDataWithKeys.Rd man/artms_plotAbundanceBoxplots.Rd man/artms_plotCorrelationConditions.Rd man/artms_plotCorrelationDistribution.Rd man/artms_plotHeatmap.Rd man/artms_plotNumberProteinsAbundance.Rd man/artms_plotRatioLog2fc.Rd man/artms_plotReproducibilityAbundance.Rd man/artms_plotReproducibilityEvidence.Rd man/artms_plotVenn2.Rd man/artms_proportionPlot.Rd man/artms_proteinToSiteConversion.Rd man/artms_replicatePlots.Rd man/artms_resultsWide.Rd man/artms_runMSstats.Rd man/artms_sampleCorrelationHeatmap.Rd man/artms_samplePeptideBarplot.Rd man/artms_selectTheOneLog2fc.Rd man/artms_significantHits.Rd man/artms_spectralCounts.Rd man/artms_volcanoPlot.Rd man/artms_writeContrast.Rd man/artms_writeExtras.Rd man/avg_intensity_RT.Rd man/changeColumnName.Rd man/checkIfFile.Rd man/filterNumUniqPep.Rd man/interaction_overlap.Rd man/isEvidenceNewVersion.Rd man/mq2mss.Rd man/mq2mss_PTM.Rd man/msstats_summary.Rd man/ph_evidence.Rd man/ph_keys.Rd man/prettyPrintHeatmapLabels.Rd man/randomDF.Rd man/read_evidence_file.Rd man/removeMaxQProteinGroups.Rd man/resultsHeatmap.Rd man/select_ref.Rd man/trim.Rd man/unifyColumnNames.Rd tests/testthat.R tests/testthat/test-evidence.R vignettes/artMS_vignette.Rmd
kroganlab/artMS documentation built on Sept. 10, 2018, 6:47 a.m.