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use bootstrap trees for confidence intervals, fix some bugs

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@tothuhien tothuhien released this 10 Sep 10:23
· 34 commits to master since this release
  • Allow to use bootstrap trees to calculate confidence intervals of rates and dates, use the same option -f. So -f can be either the number of sampling simulation or a file containing bootstrap trees.
  • Fix some bugs related to unrooted trees and outgroups.