API for walterxie/ComMA
Community Matrix Analysis
| Global functions | |
|---|---|
| CMStatistics | Man page |
| ComMA | Man page |
| ComMA-package | Man page |
| CommunityComparison | Man page |
| CommunityPhyloStru | Man page |
| EUtils | Man page |
| IOComMA | Man page |
| JostDiversity | Man page |
| PlotPrioritisation | Man page |
| RDA | Man page |
| ReadsOTUsTaxa | Man page |
| TaxaUtils | Man page |
| TreeUtils | Man page |
| TurnoverDist | Man page |
| UtilsCombine | Man page |
| abundancePerSample | Man page |
| annotateRAXMLTree | Man page |
| assignTaxaByRank | Man page |
| batchDownload | Man page |
| beta1minus1 | Man page |
| classification | Man page |
| combineTaxaAssign | Man page |
| combineTriMatrix | Man page |
| combineTwoDF | Man page |
| convertType | Man page |
| corrEnterotypeToGroup | Man page |
| countCharOccurrences | Man page |
| createTaxaTableMEGAN | Man page |
| createTaxaTableRDP | Man page |
| ctreeClassification | Man page |
| deg2rad | Man page |
| distance | Man page |
| diverrare | Man page |
| diversityTable | Man page |
| doRDA | Man page |
| enterotype | Man page |
| enterotypePipeline | Man page |
| findDuplicates | Man page |
| firstN | Man page |
| freqUniqueValue | Man page |
| gcd | Man page |
| gcd.hf | Man page |
| gcd.slc | Man page |
| gcd.vif | Man page |
| geodesicDist.hf | Man page |
| geodesicDist.slc | Man page |
| getClusters | Man page |
| getCountsSums | Man page |
| getDataCluster | Man page |
| getDissimilarity | Man page |
| getDissimilarityList | Man page |
| getDiverRare | Man page |
| getFirstNInString | Man page |
| getJSD | Man page |
| getMethodLines | Man page |
| getMultiDiverRare | Man page |
| getPhylorareDF | Man page |
| getPlotPrior | Man page |
| getPlotPrior.JostDiver | Man page |
| getPlotPrior.PhyloAlpha | Man page |
| getPlural | Man page |
| getRelativeAbundance | Man page |
| getSubsamplesForDiverRare | Man page |
| getTaxaMap | Man page |
| getTriMatrix | Man page |
| ggDiverRare | Man page |
| groupsTaxaMembers | Man page |
| gsubDF | Man page |
| installAllPackages | Man page |
| lassoClassification | Man page |
| mantelComparison | Man page |
| matchCMEnv | Man page |
| mergeBy | Man page |
| mergeCMTaxa | Man page |
| mergeListOfDF | Man page |
| mergePlotPriorListOfDF | Man page |
| mkDir | Man page |
| mostAbundantRows | Man page |
| mvRowsToLast | Man page |
| nmdsTriMatrix | Man page |
| noise.removal | Man page |
| normalize | Man page |
| parseTSeqSet | Man page |
| parseTaxaSet | Man page |
| pasteDF | Man page |
| phylo.alpha | Man page |
| phylo.beta.dist | Man page |
| phylo.mntd | Man page |
| phylo.mpd | Man page |
| phylo.unifrac.dist | Man page |
| plotClusterAbundence | Man page |
| plotCombinedTriMatrix | Man page |
| plotCorrelations | Man page |
| plotEnterotypes | Man page |
| plotOptClusters | Man page |
| plotPDBeta | Man page |
| plotPrioritisation | Man page |
| plotPrioritisation.NeatMap | Man page |
| plotPrioritisation.Phyloseq | Man page |
| plotProcrustes | Man page |
| plotRDA | Man page |
| plotTaxonomy | Man page |
| prepTaxonomy | Man page |
| preprocessCM | Man page |
| preprocessEnv | Man page |
| prettyNumbers | Man page |
| printResult | Man page |
| printXTable | Man page |
| printXTable.RDA | Man page |
| procrustesComparison | Man page |
| readCodeCoverage | Man page |
| readCommunityMatrix | Man page |
| readFile | Man page |
| readFileLineByLine | Man page |
| readMCMCLog | Man page |
| readTaxaTable | Man page |
| renameFastaID | Man page |
| renameTips | Man page |
| richnessPerSample | Man page |
| rmDuplicateSeq | Man page |
| rmMinAbundance | Man page |
| seqSet2Fasta | Man page |
| shannonPerSample | Man page |
| simpleCap | Man page |
| spatial | Man page |
| spilt.df | Man page |
| splitPath | Man page |
| stringUtils | Man page |
| sublistByPairs | Man page |
| subsetCM | Man page |
| subsetSequences | Man page |
| subsetTaxaTable | Man page |
| substrBetween | Man page |
| substrLast | Man page |
| substrLastSplit | Man page |
| sumColumns | Man page |
| summReadsOTUsPipeline | Man page |
| summaryCM | Man page |
| summaryCM.Vector | Man page |
| summaryCMPerSample | Man page |
| summaryDiversity | Man page |
| summaryOTUs | Man page |
| summaryRank | Man page |
| summaryTaxaAssign | Man page |
| summaryTaxaGroup | Man page |
| transposeDF | Man page |
| trimSpace | Man page |
| trimStartEndSpace | Man page |
| utilsCM | Man page |
| utilsSeq | Man page |
| writeCommunityMatrix | Man page |
| writeTable | Man page |
