Estimate Transition/Transversion Bias (ML)

Models | Estimate Transition A transition occurs when a purine is substituted by a purine, or a pyrimidine by a pyrimidine./Transversion A change from a purine to a pyrimidine, or vice versa, is a transversion. Bias (ML)

This option estimates the Transition A transition occurs when a purine is substituted by a purine, or a pyrimidine by a pyrimidine./Transversion A change from a purine to a pyrimidine, or vice versa, is a transversion. bias parameters κ, κ1, and κ2 using the Maximum Likelihood method. κ is used as a parameter of the Kimura Two-Parameter model of nucleotide evolution and some others, while κ1 and κ2 are used by the Tamura-Nei 93 model.  This is applicable only to nucleotide data (coding or non-coding).