API for kroganlab/artMS
Analytical R tools for Mass Spectrometry

Global functions
artmsAnalysisQuantifications Man page Source code
artmsAnnotateSpecie Man page Source code
artmsAnnotationUniprot Man page Source code
artmsAvgIntensityRT Man page Source code
artmsChangeColumnName Man page Source code
artmsConvertMetabolomics Man page Source code
artmsDataPlots Man page Source code
artmsEnrichLog2fc Man page Source code
artmsEnrichProfiler Man page Source code
artmsEvidenceToSAINTq Man page Source code
artmsEvidenceToSaintExpress Man page Source code
artmsExtractUniprotId Source code
artmsFilterEvidenceContaminants Man page Source code
artmsGeneratePhSiteExtended Man page Source code
artmsIsEvidenceNewVersion Man page Source code
artmsMapUniprot2Entrez Man page Source code
artmsMergeEvidenceAndKeys Man page Source code
artmsMsstatsSummary Man page Source code
artmsPhosfateOutput Man page Source code
artmsPhotonOutput Man page Source code
artmsPlotHeatmapQuant Man page Source code
artmsProtein2SiteConversion Man page Source code
artmsQualityControlEvidenceBasic Man page Source code
artmsQualityControlEvidenceExtended Man page Source code
artmsQualityControlMetabolomics Man page Source code
artmsQualityControlSummaryExtended Man page Source code
artmsQuantification Man page Source code
artmsReplicatePlots Man page Source code
artmsResultsWide Man page Source code
artmsSILACtoLong Man page Source code
artmsSpectralCounts Man page Source code
artmsVolcanoPlot Man page Source code
artmsWriteConfigYamlFile Man page Source code
artms_EnrichmentPlotHeatmaps Source code
artms_RemoveProtBelowThres Source code
artms_castMaxQToWide Source code
artms_castMaxQToWidePTM Source code
artms_checkIfFile Source code
artms_checkRawFileColumnName Source code
artms_cleanGPROFILER Source code
artms_config Man page
artms_data_corum_mito_database Man page
artms_data_pathogen_LPN Man page
artms_data_pathogen_TB Man page
artms_data_ph_evidence Man page
artms_data_ph_keys Man page
artms_data_ph_msstats_results Man page
artms_data_randomDF Man page
artms_enrichForComplexes Source code
artms_filterData Source code
artms_foldComplexEnrichment Source code
artms_getMSstatsFormat Source code
artms_getPCAplots Source code
artms_imputeMissingValues Source code
artms_loadModelQCstrict Source code
artms_loadModelqcBasic Source code
artms_mergeAbNbr Source code
artms_mergeChangesNbr Source code
artms_panelCor Source code
artms_panelHist Source code
artms_plotAbundanceBoxplots Source code
artms_plotCorrelationConditions Source code
artms_plotCorrelationDistribution Source code
artms_plotCorumEnrichment Source code
artms_plotHeat Source code
artms_plotNumberProteinsAbundance Source code
artms_plotNumberProteinsImputedLog2fc Source code
artms_plotRatioLog2fc Source code
artms_plotReproducibilityAbundance Source code
artms_plotReproducibilityEvidence Source code
artms_prettyPrintHeatmapLabels Source code
artms_qcut Source code
artms_read_evidence_file Source code
artms_removeMaxQProteinGroups Source code
artms_runMSstats Source code
artms_sampleCorrelationHeatmap Source code
artms_sampleOverlap Source code
artms_samplePeptideBarplot Source code
artms_selectTheOneLog2fc Source code
artms_significantHits Source code
artms_trim Source code
artms_unifyColumnNames Source code
artms_writeContrast Source code
artms_writeExtras Source code
kroganlab/artMS documentation built on Nov. 18, 2018, 3:11 p.m.