Files in xia-lab/MicrobiomeAnalystR
MicrobiomeAnalystR - A comprehensive R package for statistical, visual, and functional analysis of the microbiome.

.Rbuildignore
.gitignore
DESCRIPTION
MicrobiomeAnalystR.Rproj
NAMESPACE
R/data2_utilities.R R/general_anal.R R/general_graphics.R R/general_io.R R/general_load_libs.R R/general_misc.R R/general_proc.R R/general_reporter.R R/kaiju_mapping.R R/mdp_io.R R/mdp_utils.R R/ppd_utils.R R/sdp_utils.R R/tsea_utils.R README.md
docs/microbiomeanalystr_logo.png
man/AddErrMsg.Rd man/ApplyAbundanceFilter.Rd man/ApplyVarianceFilter.Rd man/CalculateHyperScore.Rd man/CoreMicrobeAnalysis.Rd man/CreateMDPRnwReport.Rd man/CreatePhyloseqObj.Rd man/CreateSDPRnwReport.Rd man/CrossReferencing.Rd man/FeatureCorrelation.Rd man/GenerateTemplates.Rd man/GetColorSchema.Rd man/GetDataForPie.Rd man/GetFinalNameMap.Rd man/GetGeneListStat.Rd man/GetMapTable.Rd man/GetORATable.Rd man/GetRFConf.Table.Rd man/GetSigTable.Corr.Rd man/GetSigTable.LEFSE.Rd man/GetSigTable.METAGENOSEQ.Rd man/GetSigTable.RNASeq.Rd man/GetSigTable.UNIVAR.Rd man/Init.mbSetObj.Rd man/Match.Pattern.Rd man/PCoA3D.Anal.Rd man/PCoA3DAnal.16SRef.Rd man/Perform16FunAnot.Rd man/PerformAlphaDiversityComp.Rd man/PerformCategoryComp.Rd man/PerformKOEnrichAnalysis_KO01100.Rd man/PerformKOEnrichAnalysis_Table.Rd man/PerformKOProjection.Rd man/PerformKOmapping.Rd man/PerformLefseAnal.Rd man/PerformMetagenomeSeqAnal.Rd man/PerformNetworkCorrelation.Rd man/PerformNormalization.Rd man/PerformRNAseqDE.Rd man/PerformRarefaction.Rd man/PerformRefDataMapping.Rd man/PerformUnivarTest.Rd man/PlotAlphaBoxData.Rd man/PlotAlphaData.Rd man/PlotBetaDiversity.Rd man/PlotBoxData.Rd man/PlotCorr.Rd man/PlotCorrHeatMap.Rd man/PlotDataPieFromPie.Rd man/PlotEnrichNet.Overview.Rd man/PlotFunAnotSummary.Rd man/PlotFunctionStack.Rd man/PlotGroupPieGraph.Rd man/PlotHeatmap.Rd man/PlotImpVar.Rd man/PlotImpVarLEfSe.Rd man/PlotLEfSeSummary.Rd man/PlotLibSizeView.Rd man/PlotOverallPieGraph.Rd man/PlotPhylogeneticTree.Rd man/PlotPiechart.Rd man/PlotRF.Classify.Rd man/PlotRF.VIP.Rd man/PlotRNASeqDotPlot.Rd man/PlotRNAseqVolcano.Rd man/PlotRareCurve.Rd man/PlotRarefactionCurve.Rd man/PlotSamplePieGraph.Rd man/PlotSampleTaxaAundanceBar.Rd man/PlotSelectedSample.Rd man/PlotTaxaAbundanceArea.Rd man/PlotTaxaAbundanceBarSamGrp.Rd man/PlotTaxaAundanceBar.Rd man/PlotTreeGraph.Rd man/PlotUsrRefPCoA3DScore.Rd man/PrepareEnrichNet.Rd man/PrepareHeatTreePlot.Rd man/PrepareHeatTreePlotDataParse_cmf.Rd man/PrepareHeatTreePlotDataParse_cmf_diff_table.Rd man/PrepareHeatTreePlotDataParse_cmf_plot.Rd man/PrepareMergedData.Rd man/PreparePCA4Shotgun.Rd man/PreparePDFReport.Rd man/PrepareQueryJson.Rd man/RF.Anal.Rd man/Read16SAbundData.Rd man/Read16SBiomData.Rd man/Read16STabData.Rd man/Read16STaxaTable.Rd man/ReadMothurData.Rd man/ReadSampleTable.Rd man/ReadShotgunBiomData.Rd man/ReadShotgunTabData.Rd man/ReadTreeFile.Rd man/RunFastSpar.Rd man/SanityCheckData.Rd man/SavePiechartImg.Rd man/SetModuleType.Rd man/SetMsetLib.Rd man/Setup.MapData.Rd man/UpdateListInput.Rd man/UpdatePieData.Rd man/UpdateSampleItems.Rd man/condenseOTUs.Rd man/dot-read.microbiomeanalyst.lib.Rd man/dot-readDataTable.Rd
vignettes/.gitignore
vignettes/Introduction_to_MicrobiomeAnalystR.Rmd vignettes/Marker_Data_Profiling.Rmd vignettes/MicrobiomeAnalystR_dada2_processing_raw_data.Rmd vignettes/Projection_with_Public_Data.Rmd vignettes/Shotgun_Data_Profiling.Rmd vignettes/Taxon_Set_Enrichment_Analysis.Rmd
xia-lab/MicrobiomeAnalystR documentation built on Oct. 17, 2019, 9:05 a.m.