sim.coaltree: Simulate a coalescence tree
In bomeara/phybase: Basic functions for phylogenetic analysis
Description
Usage
Arguments
Details
Value
Author(s)
References
See Also
Examples
Description
This function can simulate a coalescence tree from a single population with parameter theta. The coalescence times in the tree have exponential distributions. theta is equal to 4uNe where Ne is the effective population size and u is the mutation rate.
Usage
1
sim.coaltree(nspecies,theta)
Arguments
nspecies
the number of species
theta
the population parameter
Details
theta is the population parameter theta=4N*mu.
Value
The function returns the simulated coalescence tree.
Author(s)
Liang Liu lliu@uga.edu
References
John Wakeley, Coalescent theory: An introduction.
See Also
Examples
1
2
sim.coaltree(5,theta=0.2)
##[1] "((5:0.55696,(1:0.34858,3:0.34858):0.20838):2.99874,(2:0.97896,4:0.97896):2.57674)"
bomeara/phybase documentation built on May 12, 2019, 11:35 p.m.
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Description Usage Arguments Details Value Author(s) References See Also Examples
Description
This function can simulate a coalescence tree from a single population with parameter theta. The coalescence times in the tree have exponential distributions. theta is equal to 4uNe where Ne is the effective population size and u is the mutation rate.
Usage
1 | sim.coaltree(nspecies,theta)
|
Arguments
nspecies |
the number of species |
theta |
the population parameter |
Details
theta is the population parameter theta=4N*mu.
Value
The function returns the simulated coalescence tree.
Author(s)
Liang Liu lliu@uga.edu
References
John Wakeley, Coalescent theory: An introduction.
See Also
Examples
1 2 | sim.coaltree(5,theta=0.2)
##[1] "((5:0.55696,(1:0.34858,3:0.34858):0.20838):2.99874,(2:0.97896,4:0.97896):2.57674)"
|
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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