Data from: Probabilistic divergence time estimation without branch lengths: dating the origins of dinosaurs, avian flight and crown birds

Lloyd GT, Bapst DW, Friedman M, Davis KE

Date Published: November 11, 2016

DOI: http://dx.doi.org/10.5061/dryad.p660m.2

 

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Title dinosaur_MRP.tnt
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Description The MRP matrix submitted to TNT (Goloboff et al. 2008) for performing tree searches; in Hennig86/TNT format.
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Title dinosaur_tnt_1000_mpts.tre.zip
Downloaded 11 times
Description The 1,000 MPTs returned from the TNT tree searches; in Newick format (and zipped).
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Title dinosaur_str_1000_mpts.tre.zip
Downloaded 13 times
Description The 1,000 MPTs returned from the TNT tree searches with STR taxa reinserted; in Newick format (and zipped).
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Title dinosaur_dating_100_mpts.tre
Downloaded 23 times
Description The 100 trees randomly sampled and taken forward for dating; in Newick format.
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Title consensus.tre
Downloaded 21 times
Description Strict consensus of the 1,000 MPTs of dinosaur_str_1000_mpts.tre.zip in Newick format.
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Title dinosaur_occurrences.xlsx
Downloaded 12 times
Description The dinosaur occurrences used for dating; in MS Excel format.
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Title dinosaur_occurrences.txt
Downloaded 14 times
Description The dinosaur occurrences used for dating; in plain text format.
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Title dinosaur_tipages.txt
Downloaded 13 times
Description The tip ages (hard lower bounds) used for dating; in plain text format.
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Title dinosaur_timelist.txt
Downloaded 10 times
Description The time list data used to generate the three rates used in the cal3 function; in plain text format.
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Title cal3_rates_code.R
Downloaded 14 times
Description The R code used to generate the three rates used in the cal3 dating code; in R code format.
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Title cal3_dating_code.R
Downloaded 14 times
Description The R code used to perform the cal3 dating; in R code format.
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Title Hedman_code.R
Downloaded 15 times
Description The R code used to perform the Hedman dating; in R code format.
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Title cal3_dates.txt
Downloaded 9 times
Description The cal3 dates output from R; in plain text format.
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Title Hedman_dates.txt
Downloaded 12 times
Description The Hedman dates output from R; in plain text format.
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When using this data, please cite the original publication:

Lloyd GT, Bapst DW, Friedman M, Davis KE (2016) Probabilistic divergence time estimation without branch lengths: dating the origins of dinosaurs, avian flight and crown birds. Biology Letters 12(11): 20160609. http://dx.doi.org/10.1098/rsbl.2016.0609

Additionally, please cite the Dryad data package:

Lloyd GT, Bapst DW, Friedman M, Davis KE (2016) Data from: Probabilistic divergence time estimation without branch lengths: dating the origins of dinosaurs, avian flight and crown birds. Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.p660m.2
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