Giters

ms609 / Quartet

R package to calculate the similarity of two trees based on the number of shared four-taxon subtrees (or splits)

Home Page:https://ms609.github.io/Quartet/

Geek Repo:Geek Repo

Github PK Tool:Github PK Tool

Improve vignettes by discussing generalized RF distances as an alternative

ms609 opened this issue · comments

commented

References to add:

  • Bluis J., Shin D.G. 2003. Nodal distance algorithm: Calculating a phylogenetic tree comparison metric. Proc. - 3rd IEEE Symp. Bioinforma. Bioeng. BIBE 2003.:87–94.
  • Böcker S., Canzar S., Klau G.W. 2013. The generalized Robinson-Foulds metric. In: Darling A., Stoye J., editors. Algorithms in Bioinformatics. WABI 2013. Lecture Notes in Computer Science, vol 8126. Berlin, Heidelberg: Springer. p. 156–169.
  • Bogdanowicz D., Giaro K. 2012. Matching split distance for unrooted binary phylogenetic trees. IEEE/ACM Trans. Comput. Biol. Bioinforma. 9:150–160.
  • Bogdanowicz D., Giaro K. 2013. On a matching distance between rooted phylogenetic trees. Int. J. Appl. Math. Comput. Sci. 23:669–684.
  • Bogdanowicz D., Giaro K. 2017. Comparing phylogenetic trees by matching nodes using the transfer distance between partitions. J. Comput. Biol. 24:422–435.
  • Nye T.M.W., Liò P., Gilks W.R. 2006. A novel algorithm and web-based tool for comparing two alternative phylogenetic trees. Bioinformatics. 22:117–119.