Man pages for olli0601/rBEAST
rBEAST

beast2.add.alignmentNo description yet
beast2.add.bdsky.serialpriorsNo description yet
beast2.add.cluster.taxonsetsNo description yet
beast2.add.dataNo description yet
beast2.add.datetraitNo description yet
beast2.add.sasky.serialpriorsNo description yet
beast2.add.satreeNo description yet
beast2.add.startingtree.newickNo description yet
beast2.add.startingtree.randomNo description yet
beast2.add.tiplogstemNo description yet
beast2.add.treeNo description yet
beast2.add.treemodel.bdskyNo description yet
beast2.add.treemodel.saskyNo description yet
beast2.extract.distinct.topologiesNo description yet
beast2.get.priorNo description yet
beast2.get.specificationsNo description yet
beast2.get.xmlNo description yet
beast2.init.xmlNo description yet
beast2out.combine.clu.treesNo description yet
beast2out.extract.cluster.treesNo description yet
beast2out.get.log.evolrateNo description yet
beast2out.plot.cluster.treesNo description yet
beast2out.pool.cluster.treesNo description yet
beast2out.read.nexus.and.statsNo description yet
beast2out.read.nodeidtreePrivate funtion to read tree such that tip.label and...
beast2out.read.nodestatsNo description yet
beast2out.read.treesExtract a list of phylogenies from a BEAST2 posterior file
beast2out.tip.date.checkNo description yet
beast.add.from.templateCopy XML elements from template
beast.add.monophylyStatistic.for.taxonsetsAdd monophylyStatistics for each phylogenetic cluster to XML...
beast.add.startingtreeAdd starting tree to XML
beast.add.taxaAdd taxa to XML file
beast.add.tmrcaStatistic.for.taxonsetsAdd tmrcaStatistic for phylogenetic clusters to XML file
beast.adjust.gmrfSkyrideLikelihoodAdjust dimension parameter of gmrfSkyrideLikelihood
beast.adjust.mcmcAdjust MCMC element
beast.adjust.prior.rootheightAjust lower bound of uniform prior on root height
beast.choose.seq.by.clustersPick sequence data set by type of phylogenetic cluster
beast.get.startingtreeGenerate starting tree
beast.pool.clustersPool phylogenetic clusters for separate BEAST runs
beast.read.logRead BEAST log file
beast.read.opsRead BEAST ops file
beast.set.SEQSet SEQ field from sequences in sequences in 'DNAbin' matrix...
beast.set.TAXON_NAMESet TAXON_NAME field from columns in the taxon data.table.
beastxml.from.templateCreate BEAST XML file from template
beastxml.multilocus.codon.gtrGenerate multilocus XML file with a codon specific GTR model...
beastxml.multilocus.hky.fixed.topologyGenerate multilocus XML file with HKY model and fixed...
beastxml.multilocus.hky.fixed.treeGenerate multilocus XML file with HKY model and fixed...
treeannotator.get.clusterprobNo description yet
treeannotator.get.edgewidthNo description yet
treeannotator.get.immu.timelineNo description yet
treeannotator.get.phyNo description yet
treeannotator.get.ratesNo description yet
treeannotator.get.tmrcasNo description yet
treeannotator.get.viro.timelinereturn lRNA measurements for treatment periods (going to be...
treeannotator.nodelabels.getnodeheightHPDNo description yet
treeannotator.plotNo description yet
treeannotator.plot.ctimelineNo description yet
treeannotator.plot.hpdbarsNo description yet
treeannotator.plot.immu.timelineNo description yet
treeannotator.plot.node.ctimeNo description yet
treeannotator.plot.ratesNo description yet
treeannotator.plot.seronodeheightrangeNo description yet
treeannotator.plot.tipmarksNo description yet
treeannotator.plot.tipstem.timelineNo description yet
treeannotator.plot.viro.timelineNo description yet
treeannotator.readRead a BEAST treeannotator file. The node.label is set to a...
treeannotator.sero.getnodeheight.rangeNo description yet
treeannotator.tiplabel2dfNo description yet
olli0601/rBEAST documentation built on May 23, 2017, 8:01 p.m.