Package index
-
NatSelSim() - Simulating natural selection through time in a bi-allelic gene
-
OneGenHWSim() - Simulating one generation of genotypes under Hardy-Weinberg equilibrium
-
WFDriftSim() - Simulating generations of genetic drift in a Wright–Fisher (WF) population
-
plotNatSel() - Plot NatSelSim output
-
plotWFDrift() - Plot WFDriftSim output
-
calcFossilDivTT() - Calculate paleo diversity curves through different methods
-
checkAndFixUltrametric() - Find and fix small rounding errors in ultrametric trees
-
countSeqDiffs() - Counting protein sequence differences
-
estimateSpeciation() - Estimate speciation assuming a pure-birth process
-
fitCRBD() - Fit a constant-rate birth-death process to a phylogeny
-
lttPlot() - Make a lineage through time (LTT) plot
-
plotPaintedWhales() - Plotting the whale phylogeny and coloring its clades
-
plotProteinSeq() - Plot protein sequence(s)
-
plotRawFossilOccs() - Plot a literal interpretation of a fossil record
-
simulateBirthDeathRich() - Simulating richness through birth-death processes
-
simulateTree() - Simulating a phylogenetic trees through the birth-death process
-
ammonoidea_fossil - Occurrences of ammonoid fossils
-
birds_spp - Birds species list
-
cytOxidase - Cytochrome Oxidase sequences
-
data_whales - Whale body size and speciation rates
-
dinos_fossil - Occurrence of dinosaur fossils
-
mammals_fossil - Occurrences of mammal fossils
-
mammals_spp - Mammals species list
-
timeseries_fossil - Fossil Time series
-
trilob_fossil - Occurrence of trilobite fossils
-
whale_phylo - Whale Phylogeny
-
is.ProteinSeq()print(<ProteinSeq>)summary(<ProteinSeq>)head(<ProteinSeq>)tail(<ProteinSeq>) - Details, generics, and methods for the
ProteinSeqclass