Messages by Date
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2015/06/17
Re: [R-sig-phylo] Non Parametric PGLS
Liam J. Revell
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2015/06/17
Re: [R-sig-phylo] Non Parametric PGLS
Daniel Fulop
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2015/06/17
[R-sig-phylo] Non Parametric PGLS
Sergio Ferreira Cardoso
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2015/06/17
[R-sig-phylo] collapse.singles() can be confused by node numbering (Was: Bug in reorder.phylo() (related to cleaning phylo objects))
David Bapst
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2015/06/16
[R-sig-phylo] Help - phangorn ancestral.pars question and plotAnc problem
Martin Hughes
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2015/06/16
[R-sig-phylo] New Orleans Conference Call for Proposals
Todd Oakley
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2015/06/16
Re: [R-sig-phylo] Ancestral Reconstruction Using Internal Node Data
Bret Larget
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2015/06/16
Re: [R-sig-phylo] Ancestral Reconstruction Using Internal Node Data
Liam J. Revell
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2015/06/16
[R-sig-phylo] Ancestral Reconstruction Using Internal Node Data
Jackson, Laura Marie
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2015/06/16
Re: [R-sig-phylo] Bug in reorder.phylo() (related to cleaning phylo objects)
Emmanuel Paradis
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2015/06/15
Re: [R-sig-phylo] Bug in reorder.phylo() (related to cleaning phylo objects)
Liam J. Revell
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2015/06/15
Re: [R-sig-phylo] Bug in reorder.phylo() (related to cleaning phylo objects)
David Bapst
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2015/06/15
Re: [R-sig-phylo] Bug in reorder.phylo() (related to cleaning phylo objects)
David Bapst
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2015/06/15
Re: [R-sig-phylo] Bug in reorder.phylo() (related to cleaning phylo objects)
Brian O'Meara
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2015/06/15
Re: [R-sig-phylo] Bug in reorder.phylo() (related to cleaning phylo objects)
Emmanuel Paradis
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2015/06/15
Re: [R-sig-phylo] Standalone version of AWTY
Matt Pennell
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2015/06/15
Re: [R-sig-phylo] Standalone version of AWTY
Peter Cowman
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2015/06/15
Re: [R-sig-phylo] Standalone version of AWTY
Daniel Fulop
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2015/06/15
[R-sig-phylo] Standalone version of AWTY
Nicholas Crouch
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2015/06/15
Re: [R-sig-phylo] Phylogenetic size-correction
Sergio Ferreira Cardoso
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2015/06/15
Re: [R-sig-phylo] Phylogenetic size-correction
Liam J. Revell
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2015/06/15
[R-sig-phylo] Phylogenetic size-correction
Sergio Ferreira Cardoso
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2015/06/12
Re: [R-sig-phylo] Bug in reorder.phylo() (related to cleaning phylo objects)
David Bapst
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2015/06/12
Re: [R-sig-phylo] Bug in reorder.phylo() (related to cleaning phylo objects)
Klaus Schliep
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2015/06/12
[R-sig-phylo] Bug in reorder.phylo() (related to cleaning phylo objects)
David Bapst
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2015/06/12
Re: [R-sig-phylo] Links are not drawn properly
Aleksey Jironkin
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2015/06/12
Re: [R-sig-phylo] Links are not drawn properly
Emmanuel Paradis
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2015/06/10
Re: [R-sig-phylo] Pairwise genetic distances for many genes and taxa
William Gearty
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2015/06/10
[R-sig-phylo] Pairwise genetic distances for many genes and taxa
Chris Buddenhagen
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2015/06/10
[R-sig-phylo] Links are not drawn properly
Aleksey Jironkin
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2015/06/10
[R-sig-phylo] Links are not drawn properly
Aleksey Jironkin
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2015/06/10
[R-sig-phylo] bioinformatics/comparative methods post-doc UC-Boulder
Kyle Dexter
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2015/06/09
Re: [R-sig-phylo] interpretation of r-squared from pgls in caper
James Rodger
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2015/06/08
Re: [R-sig-phylo] Converting species cladogram to dendrogram for heatmap with R
Anand K S Rao
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2015/06/08
Re: [R-sig-phylo] Converting species cladogram to dendrogram for heatmap with R
Anand K S Rao
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2015/06/08
Re: [R-sig-phylo] [MORPHMET] Re: Stability of p-values (physignal and testing for morphological integration)
Joe Felsenstein
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2015/06/08
Re: [R-sig-phylo] [MORPHMET] Re: Stability of p-values (physignal and testing for morphological integration)
Alberto Gallano
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2015/06/08
Re: [R-sig-phylo] Phylogenetic regression with a trait homologous within lower taxonomic groups, but analogous between higher taxonomic levels
Daniel Fulop
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2015/06/08
Re: [R-sig-phylo] interpretation of r-squared from pgls in caper
Orme, David
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2015/06/08
[R-sig-phylo] interpretation of r-squared from pgls in caper
James Rodger
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2015/06/07
Re: [R-sig-phylo] [MORPHMET] Re: Stability of p-values (physignal and testing for morphological integration)
Joe Felsenstein
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2015/06/07
[R-sig-phylo] Phylogenetic regression with a trait homologous within lower taxonomic groups, but analogous between higher taxonomic levels
David Labonte
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2015/06/05
[R-sig-phylo] Ancestral State Reconstruction Using Internal Node Data
Jackson, Laura Marie
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2015/06/05
Re: [R-sig-phylo] Phylogenetic PCA
Sergio Ferreira Cardoso
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2015/06/05
Re: [R-sig-phylo] Converting species cladogram to dendrogram for heatmap with R
Emmanuel Paradis
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2015/06/04
Re: [R-sig-phylo] Constraining node values in an OUCH analysis
Julien Clavel
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2015/06/04
Re: [R-sig-phylo] Problem with traitDependentBAMM function
Huateng Huang
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2015/06/04
Re: [R-sig-phylo] Constraining node values in an OUCH analysis
Slater, Graham
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2015/06/04
Re: [R-sig-phylo] Constraining node values in an OUCH analysis
Daniel Fulop
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2015/06/04
Re: [R-sig-phylo] Constraining node values in an OUCH analysis
Slater, Graham
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2015/06/04
Re: [R-sig-phylo] Constraining node values in an OUCH analysis
Daniel Fulop
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2015/06/04
Re: [R-sig-phylo] Constraining node values in an OUCH analysis
Aaron King
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2015/06/04
Re: [R-sig-phylo] Constraining node values in an OUCH analysis
David Bapst
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2015/06/04
Re: [R-sig-phylo] Constraining node values in an OUCH analysis
Aaron King
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2015/06/04
[R-sig-phylo] Constraining node values in an OUCH analysis
Nathan Thompson
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2015/06/04
[R-sig-phylo] Problem with traitDependentBAMM function
Diego Salazar
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2015/06/04
Re: [R-sig-phylo] Converting species cladogram to dendrogram for heatmap with R
Liam J. Revell
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2015/06/04
Re: [R-sig-phylo] Phylogenetic PCA
Thomas Püschel
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2015/06/04
Re: [R-sig-phylo] Phylogenetic PCA
Vojtěch Zeisek
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2015/06/04
[R-sig-phylo] Phylogenetic PCA
Sergio Ferreira Cardoso
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2015/06/04
Re: [R-sig-phylo] A perfect storm: phylogenetic trees, random effects and zero-inflated binomial data
Diederik Strubbe
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2015/06/03
[R-sig-phylo] Converting species cladogram to dendrogram for heatmap with R
Anand K S Rao
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2015/06/03
Re: [R-sig-phylo] A perfect storm: phylogenetic trees, random effects and zero-inflated binomial data
Peter Smits
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2015/06/03
Re: [R-sig-phylo] A perfect storm: phylogenetic trees, random effects and zero-inflated binomial data
Daniel Fulop
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2015/06/03
Re: [R-sig-phylo] A perfect storm: phylogenetic trees, random effects and zero-inflated binomial data
Jörg Albrecht
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2015/06/03
[R-sig-phylo] A perfect storm: phylogenetic trees, random effects and zero-inflated binomial data
Diederik Strubbe
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2015/05/31
Re: [R-sig-phylo] clade-specific release and radiate model?
Julien Clavel
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2015/05/31
Re: [R-sig-phylo] clade-specific release and radiate model?
Daniel Fulop
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2015/05/31
Re: [R-sig-phylo] clade-specific release and radiate model?
Slater, Graham
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2015/05/29
Re: [R-sig-phylo] clade-specific release and radiate model?
Daniel Fulop
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2015/05/29
Re: [R-sig-phylo] clade-specific release and radiate model?
Julien Clavel
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2015/05/29
[R-sig-phylo] question about P-value AMOVA
Antonio Cabrera
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2015/05/29
Re: [R-sig-phylo] clade-specific release and radiate model?
Daniel Fulop
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2015/05/29
Re: [R-sig-phylo] clade-specific release and radiate model?
Brian O'Meara
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2015/05/28
[R-sig-phylo] clade-specific release and radiate model?
Daniel Fulop
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2015/05/28
[R-sig-phylo] Phylogenetic ANOVA or PGLS for categorical data?
Carlos H. Biagolini Junior
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2015/05/28
Re: [R-sig-phylo] fitContinuous drift model?
Slater, Graham
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2015/05/28
[R-sig-phylo] fitContinuous drift model?
Milton Tan
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2015/05/27
[R-sig-phylo] Question of how to reconstruct the ancestral state of gene numbers
Cacau Centurion
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2015/05/27
[R-sig-phylo] Phylogenetic mixed model with polymorphic binary outcome (MCMCglmm)
Alberto Gallano
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2015/05/25
[R-sig-phylo] Determining the most informative regions for a selected clade
Chris Buddenhagen
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2015/05/25
[R-sig-phylo] need to compute species rarity for each tip of the tree!!!
Stranger Guy
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2015/05/24
Re: [R-sig-phylo] Automatic model selection with phylolm objects
Anuj Guruvacharya
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2015/05/24
[R-sig-phylo] Automatic model selection with phylolm objects
Diego Salazar
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2015/05/23
[R-sig-phylo] phytools
Stranger Guy
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2015/05/22
Re: [R-sig-phylo] Map traits on phylogenetic tree - issue with aligning the trait symbols
Emmanuel Paradis
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2015/05/22
[R-sig-phylo] Map traits on phylogenetic tree - issue with aligning the trait symbols
Christina T
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2015/05/20
[R-sig-phylo] Problem with a script for iterating stochastic mapping + OU model comparison
Marina Strelin
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2015/05/19
Re: [R-sig-phylo] Problem with the map.overlap function (phytools)
Liam J. Revell
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2015/05/19
[R-sig-phylo] Problem with the map.overlap function (phytools)
Marina Strelin
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2015/05/16
Re: [R-sig-phylo] Residuals vs prediction intervals
Sergio Ferreira Cardoso
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2015/05/16
[R-sig-phylo] Residuals vs prediction intervals
Sergio Ferreira Cardoso
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2015/05/15
Re: [R-sig-phylo] Non-ultrametric tree PGLS
Sergio Ferreira Cardoso
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2015/05/15
Re: [R-sig-phylo] Non-ultrametric tree PGLS
Alejandro Gonzalez Voyer
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2015/05/14
Re: [R-sig-phylo] Non-ultrametric tree PGLS
Theodore Garland Jr
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2015/05/14
Re: [R-sig-phylo] Non-ultrametric tree PGLS
Theodore Garland Jr
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2015/05/14
[R-sig-phylo] Non-ultrametric tree PGLS
Sergio Ferreira Cardoso
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2015/05/10
Re: [R-sig-phylo] Off-diagonal elements in multivariate OU evolution (Krzysztof Bartoszek)
Aaron King
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2015/05/10
Re: [R-sig-phylo] Off-diagonal elements in multivariate OU evolution (Krzysztof Bartoszek)
krzysztofbartoszek
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2015/05/09
Re: [R-sig-phylo] Weird estimated Lambda values (PGLS)
Sergio Ferreira Cardoso
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2015/05/08
Re: [R-sig-phylo] Weird estimated Lambda values (PGLS)
Theodore Garland Jr
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2015/05/08
[R-sig-phylo] Weird estimated Lambda values (PGLS)
Sergio Ferreira Cardoso
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2015/05/07
Re: [R-sig-phylo] chronos function
Emmanuel Paradis
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2015/05/06
Re: [R-sig-phylo] Question about graphical superimposition of stochastic character mappings
Liam J. Revell
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2015/05/06
Re: [R-sig-phylo] Question about graphical superimposition of stochastic character mappings
Josef C Uyeda
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2015/05/06
[R-sig-phylo] Question about graphical superimposition of stochastic character mappings
Marina Strelin
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2015/05/06
Re: [R-sig-phylo] continued maintenance of the R-Phylo wiki
Jonathan Chang
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2015/05/06
Re: [R-sig-phylo] continued maintenance of the R-Phylo wiki
Hilmar Lapp
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2015/05/06
[R-sig-phylo] continued maintenance of the R-Phylo wiki
Hilmar Lapp
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2015/05/06
Re: [R-sig-phylo] Off-diagonal elements in multivariate OU evolution
Cody Dey
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2015/05/06
Re: [R-sig-phylo] Off-diagonal elements in multivariate OU evolution
Aaron King
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2015/05/06
Re: [R-sig-phylo] Off-diagonal elements in multivariate OU evolution
Julien Clavel
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2015/05/06
Re: [R-sig-phylo] Off-diagonal elements in multivariate OU evolution
Cody Dey
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2015/05/06
Re: [R-sig-phylo] Off-diagonal elements in multivariate OU evolution
Aaron King
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2015/05/06
Re: [R-sig-phylo] Off-diagonal elements in multivariate OU evolution
Julien Clavel
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2015/05/06
[R-sig-phylo] chronos function
Francisca Cunha Almeida
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2015/05/06
Re: [R-sig-phylo] Off-diagonal elements in multivariate OU evolution
Cody Dey
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2015/05/06
Re: [R-sig-phylo] Off-diagonal elements in multivariate OU evolution
Aaron King
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2015/05/05
Re: [R-sig-phylo] Off-diagonal elements in multivariate OU evolution
Julien Clavel
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2015/05/05
[R-sig-phylo] Off-diagonal elements in multivariate OU evolution
Cody Dey
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2015/05/05
Re: [R-sig-phylo] PGLS vs OUwie?
Julien Clavel
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2015/05/05
Re: [R-sig-phylo] PGLS vs OUwie?
Theodore Garland Jr
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2015/05/05
[R-sig-phylo] PGLS vs OUwie?
William Gearty
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2015/05/04
[R-sig-phylo] Linear parsimony in R
Diogo Melo
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2015/04/30
[R-sig-phylo] Is it okay to model species as a fixed effect in an LMM while also accounting for phylogenetic covariance?
Daniel Fulop
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2015/04/28
Re: [R-sig-phylo] ancestor vs. change plots
Milton Tan
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2015/04/27
Re: [R-sig-phylo] Speciation and extinction rates with clade data - am I doing this right?
Jostein Gohli
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2015/04/27
Re: [R-sig-phylo] Speciation and extinction rates with clade data - am I doing this right?
Emmanuel Paradis
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2015/04/27
[R-sig-phylo] Speciation and extinction rates with clade data - am I doing this right?
Jostein Gohli
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2015/04/26
Re: [R-sig-phylo] Plot phylogeny with "increasing" or "decreasing" node ages?
Nick Matzke
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2015/04/26
Re: [R-sig-phylo] Plot phylogeny with "increasing" or "decreasing" node ages?
Liam J. Revell
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2015/04/26
[R-sig-phylo] Plot phylogeny with "increasing" or "decreasing" node ages?
Nick Matzke
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2015/04/25
Re: [R-sig-phylo] ancestor vs. change plots
David Bapst
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2015/04/24
Re: [R-sig-phylo] ancestor vs. change plots
Liam J. Revell
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2015/04/24
Re: [R-sig-phylo] ancestor vs. change plots
Joe Felsenstein
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2015/04/24
Re: [R-sig-phylo] ancestor vs. change plots
Brian O'Meara
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2015/04/24
Re: [R-sig-phylo] ancestor vs. change plots
Milton Tan
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2015/04/24
[R-sig-phylo] ancestor vs. change plots
Milton Tan
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2015/04/24
Re: [R-sig-phylo] - input error with make.simmap and Question about ancestral reconstruction
Liam J. Revell
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2015/04/23
[R-sig-phylo] - input error with make.simmap and Question about ancestral reconstruction
fernan08
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2015/04/23
Re: [R-sig-phylo] bind_tree using where= "tip.label"
Zachary Charlop-Powers
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2015/04/23
[R-sig-phylo] bind_tree using where= "tip.label"
Zachary Charlop-Powers
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2015/04/18
Re: [R-sig-phylo] Non normal PGLS results
Sergio Ferreira Cardoso
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2015/04/18
Re: [R-sig-phylo] Non normal PGLS results
Theodore Garland Jr
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2015/04/18
Re: [R-sig-phylo] Non normal PGLS results
Sergio Ferreira Cardoso
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2015/04/18
Re: [R-sig-phylo] Non normal PGLS results
Liam J. Revell
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2015/04/18
[R-sig-phylo] Non normal PGLS results
Sergio Ferreira Cardoso
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2015/04/16
[R-sig-phylo] New package apex 1.0.0 released on CRAN
Jombart, Thibaut
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2015/04/16
Re: [R-sig-phylo] Sister-clade analysis of discrete characters
Joe Felsenstein
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2015/04/15
Re: [R-sig-phylo] Sister-clade analysis of discrete characters
Sam Brown
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2015/04/14
Re: [R-sig-phylo] GeoSSE question
Oscar Inostroza
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2015/04/14
Re: [R-sig-phylo] PGLS transformations
Sergio Ferreira Cardoso
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2015/04/14
Re: [R-sig-phylo] PGLS transformations
Liam J. Revell
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2015/04/14
Re: [R-sig-phylo] PGLS transformations
Sergio Ferreira Cardoso
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2015/04/13
Re: [R-sig-phylo] PGLS transformations
Emmanuel Paradis
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2015/04/13
Re: [R-sig-phylo] PGLS transformations
Liam J. Revell
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2015/04/13
Re: [R-sig-phylo] PGLS transformations
Theodore Garland Jr
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2015/04/13
Re: [R-sig-phylo] PGLS transformations
Sergio Ferreira Cardoso
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2015/04/13
[R-sig-phylo] Retrieving principal trees from split network
Michael Gruenstaeudl
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2015/04/13
Re: [R-sig-phylo] PGLS transformations
Liam J. Revell
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2015/04/13
Re: [R-sig-phylo] PGLS transformations
Sergio Ferreira Cardoso
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2015/04/13
Re: [R-sig-phylo] PGLS transformations
Emmanuel Paradis
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2015/04/12
Re: [R-sig-phylo] PGLS transformations
Theodore Garland Jr
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2015/04/12
[R-sig-phylo] PGLS - branch lengths 1
Sergio Ferreira Cardoso
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2015/04/12
[R-sig-phylo] PGLS transformations
Sergio Ferreira Cardoso
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2015/04/12
Re: [R-sig-phylo] Unsual values of alpha in OU models
Diego Salazar Tortosa
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2015/04/11
Re: [R-sig-phylo] GeoSSE question
Santiago Sanchez
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2015/04/11
[R-sig-phylo] GeoSSE question
Oscar Inostroza
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2015/04/10
Re: [R-sig-phylo] Failure to read SIMMAP 1.5 formatted tree intoR
Andreas Flampouris
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2015/04/10
Re: [R-sig-phylo] Failure to read SIMMAP 1.5 formatted tree into R
Liam J. Revell
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2015/04/10
[R-sig-phylo] Failure to read SIMMAP 1.5 formatted tree into R
Andreas Flampouris
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2015/04/09
[R-sig-phylo] Node Ages Without Phylocom
weishujuan
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2015/04/08
Re: [R-sig-phylo] rotate nodes to match taxonomic order
Jacob Berv
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2015/04/08
Re: [R-sig-phylo] rotate nodes to match taxonomic order
Emmanuel Paradis
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2015/04/08
[R-sig-phylo] FW: r-sig-genetics is alive!
Jombart, Thibaut
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2015/04/08
Re: [R-sig-phylo] rotate nodes to match taxonomic order
Jacob Berv
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2015/04/08
Re: [R-sig-phylo] rotate nodes to match taxonomic order
Emmanuel Paradis
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2015/04/08
[R-sig-phylo] Phylogenetic comparative methods in R course
Liam J. Revell
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2015/04/08
Re: [R-sig-phylo] rotate nodes to match taxonomic order
Liam J. Revell
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2015/04/07
[R-sig-phylo] rotate nodes to match taxonomic order
Jacob Berv
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2015/04/07
Re: [R-sig-phylo] Rooting on a node with resolve.root = TRUE
Emmanuel Paradis
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2015/03/31
[R-sig-phylo] Phytools and simmap- comparing methods of Stochastic mapping of discrete traits
fernan08
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2015/03/30
Re: [R-sig-phylo] Convert tree to taxonomy
Liam J. Revell
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2015/03/30
Re: [R-sig-phylo] Convert tree to taxonomy
Eliot Miller
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2015/03/30
[R-sig-phylo] Convert tree to taxonomy
John Clarke
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2015/03/28
Re: [R-sig-phylo] Unsual values of alpha in OU models
Aaron King
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2015/03/27
Re: [R-sig-phylo] Unsual values of alpha in OU models
Slater, Graham
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2015/03/27
Re: [R-sig-phylo] Unsual values of alpha in OU models
Brian O'Meara
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2015/03/27
Re: [R-sig-phylo] Unsual values of alpha in OU models
Diego Salazar Tortosa
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2015/03/27
[R-sig-phylo] Unexpected error in 'chronos' ('ape' package)
María Luisa Matey Hernández
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2015/03/27
Re: [R-sig-phylo] Unsual values of alpha in OU models
Aaron King
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2015/03/27
[R-sig-phylo] Unsual values of alpha in OU models
Diego Salazar Tortosa
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2015/03/26
Re: [R-sig-phylo] assign multiple discrete states to single tip
Brian O'Meara
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2015/03/26
Re: [R-sig-phylo] assign multiple discrete states to single tip
Lior Glick
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2015/03/25
Re: [R-sig-phylo] assign multiple discrete states to single tip
Liam J. Revell
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2015/03/25
[R-sig-phylo] assign multiple discrete states to single tip
Koski, Matthew H
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2015/03/23
Re: [R-sig-phylo] Sister-clade analysis of discrete characters
Joe Felsenstein
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2015/03/23
Re: [R-sig-phylo] Sister-clade analysis of discrete characters
William Gearty
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2015/03/23
[R-sig-phylo] Sister-clade analysis of discrete characters
Lior Glick
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2015/03/22
Re: [R-sig-phylo] determine multistate characters in nexus data matrix
Paolo Piras