Files in bomeara/phybase
Basic functions for phylogenetic analysis
DESCRIPTION
NAMESPACE
NEWS
R/ChangeBrlen.R
R/FindSpnodeDownGenenode.R
R/NJst.R
R/ancandtime.R
R/ancestor.R
R/bootstrap.R
R/bootstrap.mulgene.R
R/change.root.R
R/coal.sptree.R
R/coaltime.R
R/consense.R
R/del.node.R
R/firstlib.R
R/genetree.vector.R
R/getcoaltime.R
R/getncoal.R
R/is.clock.R
R/is.rootedtree.R
R/loglikeSP.R
R/maxtree.R
R/mrca.2nodes.R
R/mrca.nodes.R
R/mutation_exp.R
R/name2node.R
R/nancdist.R
R/noclock2clock.R
R/node.height.R
R/node2name.R
R/offspring.nodes.R
R/offspring.nodes.string.R
R/offspring.species.R
R/pair.dist.R
R/pair.dist.dna.R
R/pair.dist.mulseq.R
R/partition.tree.R
R/phybase2phylo.R
R/plottree.R
R/popsize.R
R/populationMutation.R
R/postdist.tree.R
R/rank.nodes.R
R/rdirichlet.R
R/read.dna.seq.R
R/read.tree.nodes.R
R/read.tree.string.R
R/root.tree.R
R/rootoftree.R
R/sctree.R
R/sim.coaltree.R
R/sim.coaltree.phylo.R
R/sim.coaltree.sp.R
R/sim.coaltree.sp.mu.R
R/sim.dna.R
R/simSeqfromSp.R
R/simnucleotide.R
R/site.pattern.R
R/sortmat.R
R/species.name.R
R/spstructure.R
R/star.sptree.R
R/steac.sptree.R
R/subtree.R
R/subtree.length.R
R/swap.nodes.R
R/treedist.R
R/tripleProb.R
R/tripleloglike.R
R/triplenumber.R
R/triplepara.R
R/unroottree.R
R/upgma.R
R/upgmaR.R
R/write.dna.R
R/write.subtree.R
R/write.tree.string.R
README.md
data/rooted.tree.rda
data/sptree.rda
data/unrooted.tree.rda
inst/CITATION
man/ChangeBrlen.rd
man/FindSpnodeDownGenenode.rd
man/NJst.Rd
man/ancandtime.Rd
man/ancestor.Rd
man/bootstrap.Rd
man/bootstrap.mulgene.Rd
man/change.root.Rd
man/coal.sptree.Rd
man/coaltime.Rd
man/consense.Rd
man/del.node.Rd
man/genetree.vector.Rd
man/getcoaltime.Rd
man/getncoal.Rd
man/is.clock.Rd
man/is.rootedtree.Rd
man/loglikeSP.Rd
man/maxtree.Rd
man/mrca.2nodes.Rd
man/mrca.nodes.Rd
man/mutation_exp.Rd
man/name2node.Rd
man/nancdist.Rd
man/noclock2clock.Rd
man/node.height.Rd
man/node2name.Rd
man/offspring.nodes.Rd
man/offspring.nodes.string.Rd
man/offspring.species.Rd
man/pair.dist.Rd
man/pair.dist.dna.Rd
man/pair.dist.mulseq.Rd
man/partition.tree.Rd
man/phybase-package.Rd
man/phybase2phylo.Rd
man/plottree.Rd
man/popsize.Rd
man/populationMutation.rd
man/postdist.tree.Rd
man/rank.nodes.Rd
man/rdirichlet.Rd
man/read.dna.seq.Rd
man/read.tree.nodes.Rd
man/read.tree.string.Rd
man/root.tree.Rd
man/rooted.tree.Rd
man/rootoftree.Rd
man/sctree.Rd
man/sim.coaltree.Rd
man/sim.coaltree.phylo.Rd
man/sim.coaltree.sp.Rd
man/sim.coaltree.sp.mu.rd
man/sim.dna.Rd
man/simSeqfromSp.Rd
man/simnucleotide.Rd
man/site.pattern.Rd
man/sortmat.Rd
man/species.name.Rd
man/spstructure.Rd
man/sptree.Rd
man/star.sptree.Rd
man/steac.sptree.Rd
man/subtree.Rd
man/subtree.length.Rd
man/swap.nodes.Rd
man/treedist.Rd
man/tripleProb.Rd
man/tripleloglike.Rd
man/triplenumber.Rd
man/triplepara.Rd
man/unrooted.tree.Rd
man/unroottree.Rd
man/upgma.Rd
man/upgmaR.Rd
man/write.dna.rd
man/write.subtree.Rd
man/write.tree.string.Rd
src/phybase.so
src/symbols.rds
src/tripleml.c
src/tripleml.o
