Man pages for synDss
Recombination detection using synonymous distances
| calc.Dss | Calculate the Dss statistic |
| calc.Dss.syn | Calculate the Dss statistic using synonymous distances |
| calc.null.pboot | Calculate the null distribution of the Dss statistic using... |
| calc.null.pboot.syn | Calculate the null distribution of the Synonymous Dss... |
| conv.evol | Simulate convergent evolution |
| fasta.to.alignment | Internal function, used by sim.codon. |
| make.dat | Internal function, used by sim.codon. |
| make.mj.align | Convert alignment to be readable for synonymous distance... |
| nuc.to.codon | Convert nucleotide sequence alignment to a codon sequence... |
| optim.phylo.ls.all | Least squares phylogenetic estimation with an exhaustive... |
| paml.codeml | Estimate parameters from the M3 codon substitution model |
| read.phylosim | Convert alignment to be readable for synonymous distance... |
| sim.codon | Simulate a codon sequence alignment |
| synDss-package | synDss: Recombination detection with synonymous distances |
