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re: Bootstrap question
The good people at PAUP (Jim and Dave) were kind enough to answer my
question and the process works~! Although it does take more time than
promised, it takes less time than I feared.
For anyone interested it goes like this:
>>The time need to do a bootstrap analysis increases linearly with the
number of replicates. So, if your heuristic search only took a
couple of seconds then your bootstrap will probably take about 200
seconds if you are doing 100 bootstrap replicates.
To run a bootstrap just type something like this:
bootstrap treefile=futz1.out nreps=100 search=heuristic;
More options under the bootstrap command are describe in the command
reference document. <<
You can also type in "nreps=10 search" to sample the process.