nchuck and chuckscore in TNT?

[ross.mounce]

2.) Does TNT have a functions similar to:

"nchuck=100 chuckscore=1"

These functions are used to avoid iteration bias when imposing a
maxtrees limit, so that the early addition sequence replications do
not use the majority of the saved treespace.

In context these commands would appear like this in PAUP*:

"set maxtrees = 1000 increase=no;
hsearch addseq=random nreps=10 nchuck=100 chuckscore=1;"

I have tried to read the tnt wiki and manual, these commands may
exist, but which ones!
Your help would be much appreciated,

Ross

[Pablo Golo]

Dear Ross,

you do not need the "chuckscore" (the existence of which in PAUP* I never understood); the equivalent of "nchuck" is the "hold" option of the "mult" command.  Thus,

        hold 1000 ; 
        mult = rep 10 hold 100 ;

would be the equivalent of the PAUP command string you used as example (note that the "hold" before the "mult" is a command, and inside the "mult" it is an option).  Note that, for most data sets, I'd recommend "mult = rep 100 hold 10;" rather than what you used as example --it's a better search strategy.

Best regards,

--Pablo

2009/12/7 ross.mounce <ross....@googlemail.com>

[ross.mounce]

Interesting...

Thanks for the quick replies


Ross