Man pages for cloneRate
Estimate Growth Rates from Phylogenetic Trees
| birthDeathMCMC | Growth rate estimate using MCMC |
| cloneRate-package | The 'cloneRate' package. |
| coal_to_tree | Generate tree from coalescence times |
| exampleMutTrees | Example mutation tree data |
| exampleUltraTrees | Example ultrametric tree data |
| inputCheck | Check the inputs to growth rate functions |
| internalLengths | Growth rate estimate using the sum of internal lengths |
| longitudinalData | Longitudinal validation data |
| maxLikelihood | Growth rate estimate using Maximum Likelihood |
| realCloneData | Real clone data from human blood |
| sharedMuts | Growth rate estimate using the sum of shared mutations... |
| simMut | Simulate mutation-based birth and death branching trees |
| simUltra | Simulate ultrametric birth and death branching trees |
| siteFrequency | Get site frequency spectrum of a tree |
| ultra2mut | Add poissonian mutations to an ultrametric tree(s) |
