r-sig-phylo
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[R-sig-phylo] Standalone version of AWTY
Nicholas Crouch
Re: [R-sig-phylo] Standalone version of AWTY
Daniel Fulop
Re: [R-sig-phylo] Standalone version of AWTY
Peter Cowman
Re: [R-sig-phylo] Standalone version of AWTY
Matt Pennell
[R-sig-phylo] Phylogenetic size-correction
Sergio Ferreira Cardoso
Re: [R-sig-phylo] Phylogenetic size-correction
Liam J. Revell
Re: [R-sig-phylo] Phylogenetic size-correction
Sergio Ferreira Cardoso
[R-sig-phylo] Bug in reorder.phylo() (related to cleaning phylo objects)
David Bapst
Re: [R-sig-phylo] Bug in reorder.phylo() (related to cleaning phylo objects)
Klaus Schliep
Re: [R-sig-phylo] Bug in reorder.phylo() (related to cleaning phylo objects)
David Bapst
Re: [R-sig-phylo] Bug in reorder.phylo() (related to cleaning phylo objects)
Emmanuel Paradis
Re: [R-sig-phylo] Bug in reorder.phylo() (related to cleaning phylo objects)
Brian O'Meara
Re: [R-sig-phylo] Bug in reorder.phylo() (related to cleaning phylo objects)
David Bapst
Re: [R-sig-phylo] Bug in reorder.phylo() (related to cleaning phylo objects)
David Bapst
Re: [R-sig-phylo] Bug in reorder.phylo() (related to cleaning phylo objects)
Emmanuel Paradis
Re: [R-sig-phylo] Bug in reorder.phylo() (related to cleaning phylo objects)
Liam J. Revell
[R-sig-phylo] Pairwise genetic distances for many genes and taxa
Chris Buddenhagen
Re: [R-sig-phylo] Pairwise genetic distances for many genes and taxa
William Gearty
[R-sig-phylo] Links are not drawn properly
Aleksey Jironkin
Re: [R-sig-phylo] Links are not drawn properly
Emmanuel Paradis
Re: [R-sig-phylo] Links are not drawn properly
Aleksey Jironkin
[R-sig-phylo] Links are not drawn properly
Aleksey Jironkin
[R-sig-phylo] bioinformatics/comparative methods post-doc UC-Boulder
Kyle Dexter
[R-sig-phylo] interpretation of r-squared from pgls in caper
James Rodger
Re: [R-sig-phylo] interpretation of r-squared from pgls in caper
Orme, David
Re: [R-sig-phylo] interpretation of r-squared from pgls in caper
James Rodger
Re: [R-sig-phylo] [MORPHMET] Re: Stability of p-values (physignal and testing for morphological integration)
Joe Felsenstein
Re: [R-sig-phylo] [MORPHMET] Re: Stability of p-values (physignal and testing for morphological integration)
Alberto Gallano
Re: [R-sig-phylo] [MORPHMET] Re: Stability of p-values (physignal and testing for morphological integration)
Joe Felsenstein
[R-sig-phylo] Phylogenetic regression with a trait homologous within lower taxonomic groups, but analogous between higher taxonomic levels
David Labonte
Re: [R-sig-phylo] Phylogenetic regression with a trait homologous within lower taxonomic groups, but analogous between higher taxonomic levels
Daniel Fulop
[R-sig-phylo] Ancestral State Reconstruction Using Internal Node Data
Jackson, Laura Marie
[R-sig-phylo] Constraining node values in an OUCH analysis
Nathan Thompson
Re: [R-sig-phylo] Constraining node values in an OUCH analysis
Aaron King
Re: [R-sig-phylo] Constraining node values in an OUCH analysis
David Bapst
Re: [R-sig-phylo] Constraining node values in an OUCH analysis
Aaron King
Re: [R-sig-phylo] Constraining node values in an OUCH analysis
Daniel Fulop
Re: [R-sig-phylo] Constraining node values in an OUCH analysis
Slater, Graham
Re: [R-sig-phylo] Constraining node values in an OUCH analysis
Daniel Fulop
Re: [R-sig-phylo] Constraining node values in an OUCH analysis
Slater, Graham
Re: [R-sig-phylo] Constraining node values in an OUCH analysis
Julien Clavel
[R-sig-phylo] Problem with traitDependentBAMM function
Diego Salazar
Re: [R-sig-phylo] Problem with traitDependentBAMM function
Huateng Huang
[R-sig-phylo] Phylogenetic PCA
Sergio Ferreira Cardoso
Re: [R-sig-phylo] Phylogenetic PCA
Vojtěch Zeisek
Re: [R-sig-phylo] Phylogenetic PCA
Thomas Püschel
Re: [R-sig-phylo] Phylogenetic PCA
Sergio Ferreira Cardoso
[R-sig-phylo] Converting species cladogram to dendrogram for heatmap with R
Anand K S Rao
Re: [R-sig-phylo] Converting species cladogram to dendrogram for heatmap with R
Liam J. Revell
Re: [R-sig-phylo] Converting species cladogram to dendrogram for heatmap with R
Anand K S Rao
Re: [R-sig-phylo] Converting species cladogram to dendrogram for heatmap with R
Emmanuel Paradis
Re: [R-sig-phylo] Converting species cladogram to dendrogram for heatmap with R
Anand K S Rao
[R-sig-phylo] A perfect storm: phylogenetic trees, random effects and zero-inflated binomial data
Diederik Strubbe
Re: [R-sig-phylo] A perfect storm: phylogenetic trees, random effects and zero-inflated binomial data
Jörg Albrecht
Re: [R-sig-phylo] A perfect storm: phylogenetic trees, random effects and zero-inflated binomial data
Diederik Strubbe
Re: [R-sig-phylo] A perfect storm: phylogenetic trees, random effects and zero-inflated binomial data
Jarrod Hadfield
Re: [R-sig-phylo] A perfect storm: phylogenetic trees, random effects and zero-inflated binomial data
Daniel Fulop
Re: [R-sig-phylo] A perfect storm: phylogenetic trees, random effects and zero-inflated binomial data
Peter Smits
Re: [R-sig-phylo] A perfect storm: phylogenetic trees, random effects and zero-inflated binomial data
Diederik Strubbe
[R-sig-phylo] question about P-value AMOVA
Antonio Cabrera
[R-sig-phylo] clade-specific release and radiate model?
Daniel Fulop
Re: [R-sig-phylo] clade-specific release and radiate model?
Brian O'Meara
Re: [R-sig-phylo] clade-specific release and radiate model?
Daniel Fulop
Re: [R-sig-phylo] clade-specific release and radiate model?
Julien Clavel
Re: [R-sig-phylo] clade-specific release and radiate model?
Daniel Fulop
Re: [R-sig-phylo] clade-specific release and radiate model?
Slater, Graham
Re: [R-sig-phylo] clade-specific release and radiate model?
Daniel Fulop
Re: [R-sig-phylo] clade-specific release and radiate model?
Julien Clavel
[R-sig-phylo] Phylogenetic ANOVA or PGLS for categorical data?
Carlos H. Biagolini Junior
[R-sig-phylo] fitContinuous drift model?
Milton Tan
Re: [R-sig-phylo] fitContinuous drift model?
Slater, Graham
[R-sig-phylo] Question of how to reconstruct the ancestral state of gene numbers
Cacau Centurion
[R-sig-phylo] Phylogenetic mixed model with polymorphic binary outcome (MCMCglmm)
Alberto Gallano
[R-sig-phylo] Determining the most informative regions for a selected clade
Chris Buddenhagen
[R-sig-phylo] need to compute species rarity for each tip of the tree!!!
Stranger Guy
[R-sig-phylo] Automatic model selection with phylolm objects
Diego Salazar
Re: [R-sig-phylo] Automatic model selection with phylolm objects
Anuj Guruvacharya
[R-sig-phylo] phytools
Stranger Guy
[R-sig-phylo] Map traits on phylogenetic tree - issue with aligning the trait symbols
Christina T
Re: [R-sig-phylo] Map traits on phylogenetic tree - issue with aligning the trait symbols
Emmanuel Paradis
[R-sig-phylo] Problem with a script for iterating stochastic mapping + OU model comparison
Marina Strelin
[R-sig-phylo] Problem with the map.overlap function (phytools)
Marina Strelin
Re: [R-sig-phylo] Problem with the map.overlap function (phytools)
Liam J. Revell
[R-sig-phylo] Residuals vs prediction intervals
Sergio Ferreira Cardoso
Re: [R-sig-phylo] Residuals vs prediction intervals
Sergio Ferreira Cardoso
[R-sig-phylo] Non-ultrametric tree PGLS
Sergio Ferreira Cardoso
Re: [R-sig-phylo] Non-ultrametric tree PGLS
Theodore Garland Jr
Re: [R-sig-phylo] Non-ultrametric tree PGLS
Alejandro Gonzalez Voyer
Re: [R-sig-phylo] Non-ultrametric tree PGLS
Theodore Garland Jr
Re: [R-sig-phylo] Non-ultrametric tree PGLS
Sergio Ferreira Cardoso
Re: [R-sig-phylo] Off-diagonal elements in multivariate OU evolution (Krzysztof Bartoszek)
krzysztofbartoszek
Re: [R-sig-phylo] Off-diagonal elements in multivariate OU evolution (Krzysztof Bartoszek)
Aaron King
[R-sig-phylo] Weird estimated Lambda values (PGLS)
Sergio Ferreira Cardoso
Re: [R-sig-phylo] Weird estimated Lambda values (PGLS)
Theodore Garland Jr
Re: [R-sig-phylo] Weird estimated Lambda values (PGLS)
Sergio Ferreira Cardoso
[R-sig-phylo] Question about graphical superimposition of stochastic character mappings
Marina Strelin
Re: [R-sig-phylo] Question about graphical superimposition of stochastic character mappings
Josef C Uyeda
Re: [R-sig-phylo] Question about graphical superimposition of stochastic character mappings
Liam J. Revell
[R-sig-phylo] continued maintenance of the R-Phylo wiki
Hilmar Lapp
Re: [R-sig-phylo] continued maintenance of the R-Phylo wiki
Hilmar Lapp
Re: [R-sig-phylo] continued maintenance of the R-Phylo wiki
Jonathan Chang
Re: [R-sig-phylo] continued maintenance of the R-Phylo wiki
Hilmar Lapp
Re: [R-sig-phylo] continued maintenance of the R-Phylo wiki
Vojtěch Zeisek
Re: [R-sig-phylo] continued maintenance of the R-Phylo wiki
Hilmar Lapp
Re: [R-sig-phylo] continued maintenance of the R-Phylo wiki
Vojtěch Zeisek
[R-sig-phylo] Off-diagonal elements in multivariate OU evolution
Cody Dey
Re: [R-sig-phylo] Off-diagonal elements in multivariate OU evolution
Julien Clavel
Re: [R-sig-phylo] Off-diagonal elements in multivariate OU evolution
Aaron King
Re: [R-sig-phylo] Off-diagonal elements in multivariate OU evolution
Cody Dey
Re: [R-sig-phylo] Off-diagonal elements in multivariate OU evolution
Julien Clavel
Re: [R-sig-phylo] Off-diagonal elements in multivariate OU evolution
Aaron King
Re: [R-sig-phylo] Off-diagonal elements in multivariate OU evolution
Cody Dey
Re: [R-sig-phylo] Off-diagonal elements in multivariate OU evolution
Julien Clavel
Re: [R-sig-phylo] Off-diagonal elements in multivariate OU evolution
Aaron King
Re: [R-sig-phylo] Off-diagonal elements in multivariate OU evolution
Cody Dey
[R-sig-phylo] PGLS vs OUwie?
William Gearty
Re: [R-sig-phylo] PGLS vs OUwie?
Theodore Garland Jr
Re: [R-sig-phylo] PGLS vs OUwie?
Julien Clavel
[R-sig-phylo] Linear parsimony in R
Diogo Melo
[R-sig-phylo] Is it okay to model species as a fixed effect in an LMM while also accounting for phylogenetic covariance?
Daniel Fulop
[R-sig-phylo] Speciation and extinction rates with clade data - am I doing this right?
Jostein Gohli
Re: [R-sig-phylo] Speciation and extinction rates with clade data - am I doing this right?
Emmanuel Paradis
Re: [R-sig-phylo] Speciation and extinction rates with clade data - am I doing this right?
Jostein Gohli
Re: [R-sig-phylo] Plot phylogeny with "increasing" or "decreasing" node ages?
Nick Matzke
[R-sig-phylo] Plot phylogeny with "increasing" or "decreasing" node ages?
Nick Matzke
Re: [R-sig-phylo] Plot phylogeny with "increasing" or "decreasing" node ages?
Liam J. Revell
[R-sig-phylo] ancestor vs. change plots
Milton Tan
Re: [R-sig-phylo] ancestor vs. change plots
Milton Tan
Re: [R-sig-phylo] ancestor vs. change plots
Brian O'Meara
Re: [R-sig-phylo] ancestor vs. change plots
David Bapst
Re: [R-sig-phylo] ancestor vs. change plots
Milton Tan
Re: [R-sig-phylo] ancestor vs. change plots
Joe Felsenstein
Re: [R-sig-phylo] ancestor vs. change plots
Liam J. Revell
[R-sig-phylo] - input error with make.simmap and Question about ancestral reconstruction
fernan08
Re: [R-sig-phylo] - input error with make.simmap and Question about ancestral reconstruction
Liam J. Revell
[R-sig-phylo] bind_tree using where= "tip.label"
Zachary Charlop-Powers
Re: [R-sig-phylo] bind_tree using where= "tip.label"
Zachary Charlop-Powers
[R-sig-phylo] Non normal PGLS results
Sergio Ferreira Cardoso
Re: [R-sig-phylo] Non normal PGLS results
Liam J. Revell
Re: [R-sig-phylo] Non normal PGLS results
Sergio Ferreira Cardoso
Re: [R-sig-phylo] Non normal PGLS results
Theodore Garland Jr
Re: [R-sig-phylo] Non normal PGLS results
Sergio Ferreira Cardoso
[R-sig-phylo] New package apex 1.0.0 released on CRAN
Jombart, Thibaut
[R-sig-phylo] Retrieving principal trees from split network
Michael Gruenstaeudl
[R-sig-phylo] PGLS - branch lengths 1
Sergio Ferreira Cardoso
[R-sig-phylo] PGLS transformations
Sergio Ferreira Cardoso
Re: [R-sig-phylo] PGLS transformations
Theodore Garland Jr
Re: [R-sig-phylo] PGLS transformations
Emmanuel Paradis
Re: [R-sig-phylo] PGLS transformations
Sergio Ferreira Cardoso
Re: [R-sig-phylo] PGLS transformations
Liam J. Revell
Re: [R-sig-phylo] PGLS transformations
Sergio Ferreira Cardoso
Re: [R-sig-phylo] PGLS transformations
Liam J. Revell
Re: [R-sig-phylo] PGLS transformations
Liam J. Revell
Re: [R-sig-phylo] PGLS transformations
Sergio Ferreira Cardoso
Re: [R-sig-phylo] PGLS transformations
Theodore Garland Jr
Re: [R-sig-phylo] PGLS transformations
Emmanuel Paradis
Re: [R-sig-phylo] PGLS transformations
Sergio Ferreira Cardoso
[R-sig-phylo] GeoSSE question
Oscar Inostroza
Re: [R-sig-phylo] GeoSSE question
Santiago Sanchez
Re: [R-sig-phylo] GeoSSE question
Oscar Inostroza
[R-sig-phylo] Failure to read SIMMAP 1.5 formatted tree into R
Andreas Flampouris
Re: [R-sig-phylo] Failure to read SIMMAP 1.5 formatted tree into R
Liam J. Revell
Re: [R-sig-phylo] Failure to read SIMMAP 1.5 formatted tree intoR
Andreas Flampouris
[R-sig-phylo] Node Ages Without Phylocom
weishujuan
[R-sig-phylo] FW: r-sig-genetics is alive!
Jombart, Thibaut
[R-sig-phylo] Phylogenetic comparative methods in R course
Liam J. Revell
[R-sig-phylo] rotate nodes to match taxonomic order
Jacob Berv
Re: [R-sig-phylo] rotate nodes to match taxonomic order
Liam J. Revell
Re: [R-sig-phylo] rotate nodes to match taxonomic order
Emmanuel Paradis
Re: [R-sig-phylo] rotate nodes to match taxonomic order
Jacob Berv
Re: [R-sig-phylo] rotate nodes to match taxonomic order
Emmanuel Paradis
Re: [R-sig-phylo] rotate nodes to match taxonomic order
Jacob Berv
[R-sig-phylo] Phytools and simmap- comparing methods of Stochastic mapping of discrete traits
fernan08
[R-sig-phylo] Convert tree to taxonomy
John Clarke
Re: [R-sig-phylo] Convert tree to taxonomy
Eliot Miller
Re: [R-sig-phylo] Convert tree to taxonomy
Liam J. Revell
[R-sig-phylo] Unexpected error in 'chronos' ('ape' package)
María Luisa Matey Hernández
[R-sig-phylo] Unsual values of alpha in OU models
Diego Salazar Tortosa
Re: [R-sig-phylo] Unsual values of alpha in OU models
Aaron King
Re: [R-sig-phylo] Unsual values of alpha in OU models
Diego Salazar Tortosa
Re: [R-sig-phylo] Unsual values of alpha in OU models
Brian O'Meara
Re: [R-sig-phylo] Unsual values of alpha in OU models
Slater, Graham
Re: [R-sig-phylo] Unsual values of alpha in OU models
Aaron King
Re: [R-sig-phylo] Unsual values of alpha in OU models
Diego Salazar Tortosa
[R-sig-phylo] assign multiple discrete states to single tip
Koski, Matthew H
Re: [R-sig-phylo] assign multiple discrete states to single tip
Liam J. Revell
Re: [R-sig-phylo] assign multiple discrete states to single tip
Lior Glick
Re: [R-sig-phylo] assign multiple discrete states to single tip
Brian O'Meara
[R-sig-phylo] Sister-clade analysis of discrete characters
Lior Glick
Re: [R-sig-phylo] Sister-clade analysis of discrete characters
William Gearty
Re: [R-sig-phylo] Sister-clade analysis of discrete characters
Joe Felsenstein
Re: [R-sig-phylo] Sister-clade analysis of discrete characters
Sam Brown
Re: [R-sig-phylo] Sister-clade analysis of discrete characters
Joe Felsenstein
[R-sig-phylo] Rooting on a node with resolve.root = TRUE
Luiz Max Carvalho
Re: [R-sig-phylo] Rooting on a node with resolve.root = TRUE
Liam J. Revell
Re: [R-sig-phylo] Rooting on a node with resolve.root = TRUE
Emmanuel Paradis
[R-sig-phylo] Problem with the use of list of trees in aov.phylo () command.
Carlos H. Biagolini Junior
Re: [R-sig-phylo] Problem with the use of list of trees in aov.phylo () command.
Liam J. Revell
Re: [R-sig-phylo] Problem with the use of list of trees in aov.phylo () command.
Carlos H. Biagolini Junior
Re: [R-sig-phylo] Problem with the use of list of trees in aov.phylo () command.
Liam J. Revell
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