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v0.5.0

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@fredericlemoine fredericlemoine released this 09 Jul 15:38
774366b
  • Added gotree brlen addcommand
  • Modified gotree lttto take mutations or dates
  • Added option gotree matrix --avg to compute average distance matrix
  • Added option gotree mutations --eemto count emergences (as in https://doi.org/10.1093/gbe/evae040)
  • Added option gotree comment clear --terminal to remove comments on terminal tips/branches only
  • Corrected transfer index computation for equal min distance branches
  • Added options gotree brlen setrand --min-len and --max-len
  • Corrected Newick parsing (thanks @lucblassel ) 9f0bbcc
  • Renamed gotree prune date to gotree cut date
  • Added options gotree cut date --min-date and --max-date
  • Corrected gotree reroot outgroup with a 0 length branch
  • Added option gotree annotate --subtrees to annotate nodes and all their downstream nodes with some annotations
  • Updated date parsing
  • Added command goalign rtt generating root (and internal nodes) to tip data + plots
  • Added option gotree resolve --rooted to output a rooted tree (root is randomly resolved).