a probabilistically time-scaled 1,000-taxon phylogenetic hypothesis for mesozoic dinosaurs and the...
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A probabilistically time-scaled 1,000-taxon phylogenetic hypothesis for
Mesozoic dinosaurs and the origins of flight and crown-birds
Graeme T. Lloyd David W. Bapst@GraemeTLloyd @dwbapst
Katie E. Davis Matt Friedman@drkatiedavis @Friedman_Lab
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When?
1. Dinosaurs
2. Flight
3. Crown birds
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Simultaneous inference
Lee et al 2014
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A posteriori time-scaling
paleotree
strap
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A posteriori time-scaling
+
paleotree
strap
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A posteriori time-scaling
+ =
paleotree
strap
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A posteriori time-scaling
Arbitrary
Branch-sharingRuta et al 2006; Brusatte et al 2008
Arbitrary addition(s)Derstler 1982
Minimum branch-lengthLaurin 2004
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A posteriori time-scaling
cal3Bapst 2013
Hedman methodLloyd and Friedman in prep
NowakNowak et al 2013
Arbitrary Probabilistic
Branch-sharingRuta et al 2006; Brusatte et al 2008
Arbitrary addition(s)Derstler 1982
Minimum branch-lengthLaurin 2004
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A posteriori time-scaling
cal3Bapst 2013
Hedman methodLloyd and Friedman in prep
Arbitrary Probabilistic
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cal3 method
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Bapst 2013
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cal3 method
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Bapst 2013
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cal3 method
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Bapst 2013
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cal3 method
*
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**
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Bapst 2013
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Hedman method
Target node Outgroup taxon
TIM
E
Hedman 2010; Lloyd and Friedman in prep
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Hedman method
Target node Outgroup taxon
TIM
E
Hedman 2010; Lloyd and Friedman in prep
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Lloyd et al. 2008Pisani et al. 2002
Phylogenetic approach
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Pipeline
Collectdata
graemetlloyd.com
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Pipeline
Collectdata
Reconciletaxonomy
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Pipeline
Collectdata
Reconciletaxonomy
Definecutoff
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Pipeline
Collectdata
Reconciletaxonomy
Definecutoff
Consensusvs. MPTs
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Taxonomytree
Pipeline
ABCDEFGHIJKL
Class Order Family Genus
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Taxonomytree
Safe Taxon.Reduction
Pipeline
github.com/graemetlloyd/Claddis
Wilkinson 1995
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Taxonomytree
Safe Taxon.Reduction
Weights
Pipeline
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Taxonomytree
Safe Taxon.Reduction
Weights Inference
Pipeline
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Taxonomytree
Safe Taxon.Reduction
Weights Inference
Pipeline
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Resultsca
l3H
edm
an
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Dinosauriaca
l3H
edm
an
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Dinosauria
2.6%
9.6%
cal3
Hed
man
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Dinosauria
0.2%
1.0%
cal3
Hed
man
-
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Avesca
l3H
edm
an
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Avesca
l3H
edm
an
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Crown birdsca
l3H
edm
an
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Crown birds
cal3Hedman
95% HPD
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Crown birds
cal3
Molecular Clock
Hedman95% HPD
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Crown birds
cal3
Molecular Clock
Hedman
Morphological Clock
95% HPD
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Conclusions
Hedman
cal3
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Conclusions
Hedman
cal3
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Conclusions
Hedman
cal3
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Conclusions
Hedman
cal3