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• • Re: [R-sig-phylo] multi2di fails on multiPhylo objects Yan Wong
  • Re: [R-sig-phylo] multi2di fails on multiPhylo objects Klaus Schliep
  • Re: [R-sig-phylo] multi2di fails on multiPhylo objects Yan Wong
  • Re: [R-sig-phylo] multi2di fails on multiPhylo objects Yan Wong
  • Re: [R-sig-phylo] multi2di fails on multiPhylo objects Emmanuel Paradis
• [R-sig-phylo] phylo from igraph Giulio V. Dalla Riva
  • Re: [R-sig-phylo] phylo from igraph Klaus Schliep
  • Re: [R-sig-phylo] phylo from igraph Giulio V. Dalla Riva
• [R-sig-phylo] Extract all possible clades from a tree Kamila Naxerova
  • Re: [R-sig-phylo] Extract all possible clades from a tree Joseph W. Brown
  • Re: [R-sig-phylo] Extract all possible clades from a tree Kamila Naxerova
  • Re: [R-sig-phylo] Extract all possible clades from a tree Joseph W. Brown
  • Re: [R-sig-phylo] Extract all possible clades from a tree Klaus Schliep
  • Re: [R-sig-phylo] Extract all possible clades from a tree Emmanuel Paradis
  • Re: [R-sig-phylo] Extract all possible clades from a tree Emmanuel Paradis
  • Re: [R-sig-phylo] Extract all possible clades from a tree Kamila Naxerova
• [R-sig-phylo] Tree plotting (and maybe others) are borked when a node label is '0' Yan Wong
  • Re: [R-sig-phylo] Tree plotting (and maybe others) are borked when a node label is '0' Emmanuel Paradis
  • Re: [R-sig-phylo] Tree plotting (and maybe others) are borked when a node label is '0' Yan Wong
• [R-sig-phylo] read.FASTA accept connection Rj Ewing
  • Re: [R-sig-phylo] read.FASTA accept connection Emmanuel Paradis
  • Re: [R-sig-phylo] read.FASTA accept connection Rj Ewing
  • Re: [R-sig-phylo] read.FASTA accept connection Emmanuel Paradis
• [R-sig-phylo] Force read.nexus() to return a multiPhylo object, even if there is only one tree Yan Wong
  • Re: [R-sig-phylo] Force read.nexus() to return a multiPhylo object, even if there is only one tree Emmanuel Paradis
  • Re: [R-sig-phylo] Force read.nexus() to return a multiPhylo object, even if there is only one tree Yan Wong
  • Re: [R-sig-phylo] Force read.nexus() to return a multiPhylo object, even if there is only one tree Liam J. Revell
  • Re: [R-sig-phylo] Force read.nexus() to return a multiPhylo object, even if there is only one tree Emmanuel Paradis
  • Re: [R-sig-phylo] Force read.nexus() to return a multiPhylo object, even if there is only one tree Liam J. Revell
• [R-sig-phylo] simulating gene trees on a given species tree and theta john d
  • Re: [R-sig-phylo] simulating gene trees on a given species tree and theta Liam J. Revell
  • Re: [R-sig-phylo] simulating gene trees on a given species tree and theta Cecile Ane
  • Re: [R-sig-phylo] simulating gene trees on a given species tree and theta Anuj Guruvacharya
  • Re: [R-sig-phylo] simulating gene trees on a given species tree and theta [email protected]
• Re: [R-sig-phylo] bonferroni corrections in Blomberg's K and Pagel's lambda Chen, Ting-Wen
• [R-sig-phylo] Threshold models using threshBayes vs MCMCglmmRAM Chris Mull
  • Re: [R-sig-phylo] Threshold models using threshBayes vs MCMCglmmRAM Jarrod Hadfield
  • Re: [R-sig-phylo] Threshold models using threshBayes vs MCMCglmmRAM Jarrod Hadfield
  • Re: [R-sig-phylo] Threshold models using threshBayes vs MCMCglmmRAM Chris Mull
  • Re: [R-sig-phylo] Threshold models using threshBayes vs MCMCglmmRAM Jarrod Hadfield
  • Re: [R-sig-phylo] Threshold models using threshBayes vs MCMCglmmRAM Chris Mull
• [R-sig-phylo] ape chronos error Riana Rishad Minocher
  • Re: [R-sig-phylo] ape chronos error Emmanuel Paradis
  • Re: [R-sig-phylo] ape chronos error Emmanuel Paradis
• [R-sig-phylo] Midpoint root a tree with root() function ape ver 4.0 Todd Knutson
  • Re: [R-sig-phylo] Midpoint root a tree with root() function ape ver 4.0 Klaus Schliep
  • Re: [R-sig-phylo] Midpoint root a tree with root() function ape ver 4.0 Todd Knutson
• [R-sig-phylo] Comparing support values on different trees Frank T Burbrink
  • Re: [R-sig-phylo] Comparing support values on different trees Keith Barker
  • Re: [R-sig-phylo] Comparing support values on different trees Jacob Berv
  • Re: [R-sig-phylo] Comparing support values on different trees Emmanuel Paradis
  • Re: [R-sig-phylo] Comparing support values on different trees Frank T Burbrink
  • Re: [R-sig-phylo] Comparing support values on different trees Emmanuel Paradis
• [R-sig-phylo] compressTipLabel as an option to read.trees() Yan Wong
  • Re: [R-sig-phylo] compressTipLabel as an option to read.trees() Joseph W. Brown
  • Re: [R-sig-phylo] compressTipLabel as an option to read.trees() Yan Wong
  • Re: [R-sig-phylo] compressTipLabel as an option to read.trees() Emmanuel Paradis
  • Re: [R-sig-phylo] compressTipLabel as an option to read.trees() Yan Wong
  • Re: [R-sig-phylo] compressTipLabel as an option to read.trees() Emmanuel Paradis
  • Re: [R-sig-phylo] compressTipLabel as an option to read.trees() Yan Wong
  • Re: [R-sig-phylo] compressTipLabel as an option to read.trees() Klaus Schliep
  • Re: [R-sig-phylo] compressTipLabel as an option to read.trees() Emmanuel Paradis
• Re: [R-sig-phylo] bonferroni corrections in Blomberg's K and Pagel's lambda Chen, Ting-Wen
  • Re: [R-sig-phylo] bonferroni corrections in Blomberg's K and Pagel's lambda Carmelo Fruciano
• [R-sig-phylo] bonferroni corrections in Blomberg's K and Pagel's lambda Chen, Ting-Wen
  • Re: [R-sig-phylo] bonferroni corrections in Blomberg's K and Pagel's lambda Theodore Garland
  • Re: [R-sig-phylo] bonferroni corrections in Blomberg's K and Pagel's lambda Fábio Machado
• [R-sig-phylo] A question about phylogenetic signal significance with 1000 trees Carturan, Bruno
  • Re: [R-sig-phylo] A question about phylogenetic signal significance with 1000 trees Brian O'Meara
  • Re: [R-sig-phylo] A question about phylogenetic signal significance with 1000 trees David Bapst
  • Re: [R-sig-phylo] A question about phylogenetic signal significance with 1000 trees Theodore Garland
  • Re: [R-sig-phylo] A question about phylogenetic signal significance with 1000 trees Carlos H. Biagolini Junior
  • Re: [R-sig-phylo] A question about phylogenetic signal significance with 1000 trees Francois KECK
• [R-sig-phylo] Estimating discrete ancestral states with ARD model in ace Katharine Walter
  • Re: [R-sig-phylo] Estimating discrete ancestral states with ARD model in ace Liam J. Revell
  • Re: [R-sig-phylo] Estimating discrete ancestral states with ARD model in ace Katharine Walter
• [R-sig-phylo] phylogenetic signal different from BM and random Menzel, Dr. Florian
  • Re: [R-sig-phylo] phylogenetic signal different from BM and random Theodore Garland
  • Re: [R-sig-phylo] phylogenetic signal different from BM and random Menzel, Dr. Florian
  • Re: [R-sig-phylo] phylogenetic signal different from BM and random Theodore Garland
  • Re: [R-sig-phylo] phylogenetic signal different from BM and random Enrico.Rezende
  • Re: [R-sig-phylo] phylogenetic signal different from BM and random Liam J. Revell
  • Re: [R-sig-phylo] phylogenetic signal different from BM and random Menzel, Dr. Florian
• [R-sig-phylo] get branch lengths from distances to root Juan Antonio Balbuena
  • Re: [R-sig-phylo] get branch lengths from distances to root Liam J. Revell
  • Re: [R-sig-phylo] get branch lengths from distances to root Juan Antonio Balbuena
  • Re: [R-sig-phylo] get branch lengths from distances to root Cecile Ane
• [R-sig-phylo] caretaker / user for the rphylo.org domain? Hilmar Lapp
• Re: [R-sig-phylo] R-sig-phylo Digest, Vol 106, Issue 15 Chris Buddenhagen
• [R-sig-phylo] published plant or other disease/pest phylogeny/alignment with geo referenced data Chris Buddenhagen
• [R-sig-phylo] maximum agreement subtrees? John Denton
• [R-sig-phylo] distances between trees Karla Shikev
  • Re: [R-sig-phylo] distances between trees Emmanuel Paradis
• [R-sig-phylo] concatenating loci with different taxa Karla Shikev
  • Re: [R-sig-phylo] concatenating loci with different taxa Emmanuel Paradis
  • Re: [R-sig-phylo] concatenating loci with different taxa Klaus Schliep
  • Re: [R-sig-phylo] concatenating loci with different taxa Karla Shikev
• [R-sig-phylo] PhD positions in Evolutionay Biology with a focus on phylogenetic comparative methods krzysztofbartoszek
• [R-sig-phylo] The use of Pagels Lamda Camilla Lorange Lindberg
• [R-sig-phylo] Bug in bitsplits? Leonid Chindelevitch
  • Re: [R-sig-phylo] Bug in bitsplits? Leonid Chindelevitch
• [R-sig-phylo] error when using function read.GenBank in ape Chen, Ting-Wen
  • Re: [R-sig-phylo] error when using function read.GenBank in ape Eduardo Ascarrunz
  • Re: [R-sig-phylo] error when using function read.GenBank in ape Emmanuel Paradis
  • Re: [R-sig-phylo] error when using function read.GenBank in ape Eduardo Ascarrunz
  • Re: [R-sig-phylo] error when using function read.GenBank in ape Vojtěch Zeisek
  • Re: [R-sig-phylo] error when using function read.GenBank in ape Emmanuel Paradis
  • Re: [R-sig-phylo] error when using function read.GenBank in ape Vojtěch Zeisek
  • Re: [R-sig-phylo] error when using function read.GenBank in ape Emmanuel Paradis
  • Re: [R-sig-phylo] error when using function read.GenBank in ape Vojtěch Zeisek
• [R-sig-phylo] pre-release of ape 4.0 Emmanuel Paradis
• [R-sig-phylo] Deltran parsimony in R Martin Hughes
• [R-sig-phylo] How to combine MCMC results from BiSSE analyses based on multiple trees? Lei Yang
• [R-sig-phylo] phylogenetic signal test for discrete trait Chen, Ting-Wen
• [R-sig-phylo] simulate tree by specifying taxa distance Yu, Guangchuang
  • Re: [R-sig-phylo] simulate tree by specifying taxa distance Giulio V. Dalla Riva
  • Re: [R-sig-phylo] simulate tree by specifying taxa distance Yu, Guangchuang
• [R-sig-phylo] 99 Ways to ruin an open source project Joseph W. Brown
• [R-sig-phylo] Newick tree merging at the wrong level? Carlos Porto Filho
  • Re: [R-sig-phylo] Newick tree merging at the wrong level? Liam J. Revell
  • Re: [R-sig-phylo] Newick tree merging at the wrong level? Liam J. Revell
  • Re: [R-sig-phylo] Newick tree merging at the wrong level? Carlos Porto Filho
  • Re: [R-sig-phylo] Newick tree merging at the wrong level? Liam J. Revell
• [R-sig-phylo] Counting independent evolutionary origin of trait evolution Gopal Murali
  • Re: [R-sig-phylo] Counting independent evolutionary origin of trait evolution Liam J. Revell
  • Re: [R-sig-phylo] Counting independent evolutionary origin of trait evolution Gopal Murali
• [R-sig-phylo] Conversion between phylo and hclust objects? Alexandre F. Souza
• [R-sig-phylo] TreeBase Sami Hussein Rabei
• [R-sig-phylo] Making ultrametric trees Shinichi Nakagawa
  • Re: [R-sig-phylo] Making ultrametric trees Emmanuel Paradis
  • Re: [R-sig-phylo] Making ultrametric trees Shinichi Nakagawa
  • Re: [R-sig-phylo] Making ultrametric trees Emmanuel Paradis
  • Re: [R-sig-phylo] Making ultrametric trees Alejandro Gonzlaez Voyer
  • Re: [R-sig-phylo] Making ultrametric trees Shinichi Nakagawa
  • Re: [R-sig-phylo] Making ultrametric trees Brian O'Meara
  • Re: [R-sig-phylo] Making ultrametric trees Shinichi Nakagawa
  • Re: [R-sig-phylo] Making ultrametric trees Emmanuel Paradis
  • Re: [R-sig-phylo] Making ultrametric trees Alejandro Gonzalez Voyer
  • Re: [R-sig-phylo] Making ultrametric trees Giulio V. Dalla Riva
  • Re: [R-sig-phylo] Making ultrametric trees Klaus Schliep
  • Re: [R-sig-phylo] Making ultrametric trees Shinichi Nakagawa
• [R-sig-phylo] fatal error plotting trees Manabu Sakamoto
  • Re: [R-sig-phylo] fatal error plotting trees David Bapst
  • Re: [R-sig-phylo] fatal error plotting trees Manabu Sakamoto
  • Re: [R-sig-phylo] fatal error plotting trees Emmanuel Paradis
• [R-sig-phylo] New User Sami Hussein Rabei
• [R-sig-phylo] Adding a custom legend underneath a phylo plot with coloured tips Gabriel Yedid
  • Re: [R-sig-phylo] Adding a custom legend underneath a phylo plot with coloured tips Liam J. Revell
  • Re: [R-sig-phylo] Adding a custom legend underneath a phylo plot with coloured tips Gabriel Yedid
  • Re: [R-sig-phylo] Adding a custom legend underneath a phylo plot with coloured tips Liam J. Revell
• [R-sig-phylo] Draw multiple ASR pies on nodes Charles Pouchon
  • Re: [R-sig-phylo] Draw multiple ASR pies on nodes Liam J. Revell
• [R-sig-phylo] Maximize Mean Pairwise Distance (Leonardo R? Jorge) Sh Esmaielbegi
• [R-sig-phylo] Maximize Mean Pairwise Distance Leonardo Ré Jorge
• [R-sig-phylo] Truncate x-axis in phydataplot barplots Marian Schubert
  • Re: [R-sig-phylo] Truncate x-axis in phydataplot barplots Liam Revell
  • Re: [R-sig-phylo] Truncate x-axis in phydataplot barplots Liam J. Revell
  • [R-sig-phylo] ‏‏رد: Truncate x-axis in phydataplot barplots Sami Hussein Rabei
  • Re: [R-sig-phylo] Truncate x-axis in phydataplot barplots Emmanuel Paradis
• Re: [R-sig-phylo] Supertree with Stratigraphic Constraints William Gearty
  • Re: [R-sig-phylo] Supertree with Stratigraphic Constraints David Bapst
  • Re: [R-sig-phylo] Supertree with Stratigraphic Constraints William Gearty
  • Re: [R-sig-phylo] Supertree with Stratigraphic Constraints David Bapst
• [R-sig-phylo] predicting computational needs of a MuSSE analysis? Elizabeth Miller
• [R-sig-phylo] 'FINAL CALL - Phylogentic data analysis using R' Oliver Hooker
• [R-sig-phylo] ape functions to become generic Emmanuel Paradis
  • Re: [R-sig-phylo] ape functions to become generic David Bapst
  • Re: [R-sig-phylo] ape functions to become generic Emmanuel Paradis
  • Re: [R-sig-phylo] ape functions to become generic David Bapst
• [R-sig-phylo] accounting for unknown tip states in ancestral rescontructions using phytools and bayestraits Jesse Delia
• [R-sig-phylo] Error in dis[sppInSample, sppInSample] : subscript out of bounds Jhonny Capichoni Massante
• [R-sig-phylo] evolve discrete characters on non-ultrametric tree? John Denton
  • Re: [R-sig-phylo] evolve discrete characters on non-ultrametric tree? Liam J. Revell
• [R-sig-phylo] phylogenetic signal-Blomberg's K Menzel, Dr. Florian
  • Re: [R-sig-phylo] phylogenetic signal-Blomberg's K Liam J. Revell
• [R-sig-phylo] Phylogenetic signal Sergio Ferreira Cardoso
• [R-sig-phylo] Use of a Phylocom tree for PGLS Oscar Valverde
  • Re: [R-sig-phylo] Use of a Phylocom tree for PGLS Liam J. Revell
  • Re: [R-sig-phylo] Use of a Phylocom tree for PGLS Liam J. Revell
  • Re: [R-sig-phylo] Use of a Phylocom tree for PGLS Jacob Berv
  • Re: [R-sig-phylo] Use of a Phylocom tree for PGLS Brian O'Meara
  • Re: [R-sig-phylo] Use of a Phylocom tree for PGLS Oscar Valverde
• [R-sig-phylo] mulRF distance Ondřej Mikula
  • Re: [R-sig-phylo] mulRF distance Liam J. Revell
  • [R-sig-phylo] simmap correlation statistics in R? Maria Ghazali
  • Re: [R-sig-phylo] simmap correlation statistics in R? Liam J. Revell
• [R-sig-phylo] Standard errors of theta estimates in OU models Xiaojing Wei
  • Re: [R-sig-phylo] Standard errors of theta estimates in OU models Brian O'Meara
  • Re: [R-sig-phylo] Standard errors of theta estimates in OU models Cecile Ane
  • Re: [R-sig-phylo] Standard errors of theta estimates in OU models Xiaojing Wei
• [R-sig-phylo] Collapse a clade by tip labels while maintaining phylogenetic position branchlizard .
  • Re: [R-sig-phylo] Collapse a clade by tip labels while maintaining phylogenetic position Hilmar Lapp
  • Re: [R-sig-phylo] Collapse a clade by tip labels while maintaining phylogenetic position branchlizard .
  • Re: [R-sig-phylo] Collapse a clade by tip labels while maintaining phylogenetic position Liam J. Revell
  • Re: [R-sig-phylo] Collapse a clade by tip labels while maintaining phylogenetic position branchlizard .
  • Re: [R-sig-phylo] Collapse a clade by tip labels while maintaining phylogenetic position Florian Boucher
  • Re: [R-sig-phylo] Collapse a clade by tip labels while maintaining phylogenetic position branchlizard .
  • Re: [R-sig-phylo] Collapse a clade by tip labels while maintaining phylogenetic position Florian Boucher
  • Re: [R-sig-phylo] Collapse a clade by tip labels while maintaining phylogenetic position Liam J. Revell
  • Re: [R-sig-phylo] Collapse a clade by tip labels while maintaining phylogenetic position branchlizard .

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