Chris Botka wrote:
> I have a user who has constructed a tree using PAUP. She would now
> like to represent the distances between the sequences in years.
>> I am not sure that this is possible, or how accurate it might be,
> but I vaguely remember seeing a figure or 2 where the relationships
> between sequences in a tree were described using a divergence
> estimate in years.
>> If anyone could direct me to a source where this is discussed, or a
> program that would make this estimate, I would appreciate it.
Don't even try to calibrate a PAUP tree with years. I have looked into
and it shouldn't be done. ( I presume you are trying to calibrate a PAUP
phylogram and not a cladogram.) This is what you should do. Construct
nearest-neighbor or some other distance tree (you can use the topology
the PAUP output if you wish, but most packages will find the best
you). You can then try to calibrate that tree following Brian Foley's