Files in olli0601/rBEAST
rBEAST
.Rbuildignore
.gitignore
.travis.yml
DESCRIPTION
LICENSE
NAMESPACE
R/fun.beast.R
R/fun.beast2.R
R/fun.beast2output.R
R/fun.treeannotator.R
R/script.beast.R
README.md
TITLE
example/ex.beast.from.template.R
example/ex.beast.from.template.generate.data.R
example/ex.beast.pool.cluster.R
example/ex.beastxml.multilocus.codon.gtr.R
example/ex.beastxml.multilocus.hky.fixed.tree.R
inst/.DS_Store
inst/extra/.DS_Store
inst/extra/exclupool_150414.R
inst/extra/sim_150414a_HKY_fixedtree_grid-mseq400.xml
inst/extra/sim_150414a_seq.R
inst/extra/sim_150414a_starttrees.newick
inst/extra/sim_150416_njtree.R
inst/extra/sim_150416_seq.R
inst/xml_templates/BEAST_template_um192rhU2080.xml
man/beast.add.from.template.Rd
man/beast.add.monophylyStatistic.for.taxonsets.Rd
man/beast.add.startingtree.Rd
man/beast.add.taxa.Rd
man/beast.add.tmrcaStatistic.for.taxonsets.Rd
man/beast.adjust.gmrfSkyrideLikelihood.Rd
man/beast.adjust.mcmc.Rd
man/beast.adjust.prior.rootheight.Rd
man/beast.choose.seq.by.clusters.Rd
man/beast.get.startingtree.Rd
man/beast.pool.clusters.Rd
man/beast.read.log.Rd
man/beast.read.ops.Rd
man/beast.set.SEQ.Rd
man/beast.set.TAXON_NAME.Rd
man/beast2.add.alignment.Rd
man/beast2.add.bdsky.serialpriors.Rd
man/beast2.add.cluster.taxonsets.Rd
man/beast2.add.data.Rd
man/beast2.add.datetrait.Rd
man/beast2.add.sasky.serialpriors.Rd
man/beast2.add.satree.Rd
man/beast2.add.startingtree.newick.Rd
man/beast2.add.startingtree.random.Rd
man/beast2.add.tiplogstem.Rd
man/beast2.add.tree.Rd
man/beast2.add.treemodel.bdsky.Rd
man/beast2.add.treemodel.sasky.Rd
man/beast2.extract.distinct.topologies.Rd
man/beast2.get.prior.Rd
man/beast2.get.specifications.Rd
man/beast2.get.xml.Rd
man/beast2.init.xml.Rd
man/beast2out.combine.clu.trees.Rd
man/beast2out.extract.cluster.trees.Rd
man/beast2out.get.log.evolrate.Rd
man/beast2out.plot.cluster.trees.Rd
man/beast2out.pool.cluster.trees.Rd
man/beast2out.read.nexus.and.stats.Rd
man/beast2out.read.nodeidtree.Rd
man/beast2out.read.nodestats.Rd
man/beast2out.read.trees.Rd
man/beast2out.tip.date.check.Rd
man/beastxml.from.template.Rd
man/beastxml.multilocus.codon.gtr.Rd
man/beastxml.multilocus.hky.fixed.topology.Rd
man/beastxml.multilocus.hky.fixed.tree.Rd
man/treeannotator.get.clusterprob.Rd
man/treeannotator.get.edgewidth.Rd
man/treeannotator.get.immu.timeline.Rd
man/treeannotator.get.phy.Rd
man/treeannotator.get.rates.Rd
man/treeannotator.get.tmrcas.Rd
man/treeannotator.get.viro.timeline.Rd
man/treeannotator.nodelabels.getnodeheightHPD.Rd
man/treeannotator.plot.Rd
man/treeannotator.plot.ctimeline.Rd
man/treeannotator.plot.hpdbars.Rd
man/treeannotator.plot.immu.timeline.Rd
man/treeannotator.plot.node.ctime.Rd
man/treeannotator.plot.rates.Rd
man/treeannotator.plot.seronodeheightrange.Rd
man/treeannotator.plot.tipmarks.Rd
man/treeannotator.plot.tipstem.timeline.Rd
man/treeannotator.plot.viro.timeline.Rd
man/treeannotator.read.Rd
man/treeannotator.sero.getnodeheight.range.Rd
man/treeannotator.tiplabel2df.Rd
misc/.DS_Store
misc/rBEAST.prjcts.R
misc/rBEAST.startme.R
rBEAST.Rproj
tests/testthat.R
tests/testthat/test-beast2out.read.trees.R
vignettes/example.trees
vignettes/read_beast_posterior.Rmd
