Data from: Clock model makes a large difference to age estimates of long-stemmed clades with no internal calibration: a test using Australian grasstrees

Crisp MD, Hardy NB, Cook LG

Date Published: December 24, 2014

DOI: http://dx.doi.org/10.5061/dryad.d1nb6

 

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Title Monocots_cpDNA
Downloaded 46 times
Description Data files for phylogenetic analyses of monocots in RAxML and BEAST using cpDNA alignment with varying combinations of DNA partitioning and clock models.
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Title Xanthorrhoeaceae_cpDNA
Downloaded 46 times
Description xml files for dating analyses of Xanthorrhoeaceae in BEAST using cpDNA alignment with varying combinations of tree growth models (Yule and birth-death) and clock models (RLC and UCLN).
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Title Xanthorrhoeaceae_rpb2
Downloaded 43 times
Description xml files for dating analyses of Xanthorrhoeaceae in BEAST using rpb2 alignment with varying combinations of DNA partitioning, clock and tree growth models.
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Title Appendix 1 simulations
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Description Zip file containing (1) files used for simulations including scripts for simulating broom-and-bush trees, (2) a tree file containing the 10 trees selected for further analysis, (3) xml files used for analysis of simulated alignments in BEAST under combinations of tree growth (Yule and BD) and clock (RLC and UCLN) models, and (4) annotated MCC trees resulting from the BEAST analyses.
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Title Appendix 2 cpDNA accessions
Downloaded 43 times
Description Table of taxa sequenced for ndhF and trnL-trnF (chloroplast DNA) with GenBank accession numbers
Download Appendix 2 cpDNA accessions.doc (221.1 Kb)
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Title Appendix 3 rpb2 accessions
Downloaded 38 times
Description Table of taxa sequenced for rpb2 (nuclear DNA) with GenBank accession numbers
Download Appendix 3 rpb2 accessions.doc (118.2 Kb)
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When using this data, please cite the original publication:

Crisp MD, Hardy NB, Cook LG (2014) Data from: Clock model makes a large difference to age estimates of long-stemmed clades with no internal calibration: a test using Australian grasstrees. BMC Evolutionary Biology 14: 263. http://dx.doi.org/10.1186/s12862-014-0263-3

Additionally, please cite the Dryad data package:

Crisp MD, Hardy NB, Cook LG (2014) Data from: Clock model makes a large difference to age estimates of long-stemmed clades with no internal calibration: a test using Australian grasstrees. Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.d1nb6
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