Data from: Inferring phylogeny and introgression using RADseq data: an example from flowering plants (Pedicularis: Orobanchaceae)

 

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Title python script to simulate RAD sequences
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Description Uses the egglib python module to simulate RAD sequences evolving on a phylogeny under a coalescent model with or without introgression between lineages.
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Title sequences at NCBI SRA: SRR833563
Description raw RADseq files for the 13 samples used in this study
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Title aligned loci for introgression analyses: min4_wo.readloci.txt
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Description aligned RADseq loci in readable format produced by pyRAD and used as input for introgression analyses
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Title Table_S1: specimen voucher information
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Description specimen voucher information
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Title Table_S2: BUCKy output
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Description Results of Bayesian concordance analysis in BUCKy at two values for the prior alpha
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Title Table_S3: D-statistic introgression results
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Description four taxon D-statistic and five-taxon partitioned D-statistic results testing introgression on simulated and empirical data
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Title treebase accession number 14102
Description Link to treebase data. ML and BCA trees: http://purl.org/phylo/treebase/phylows/study/TB2:S14102
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When using this data, please cite the original publication:

Eaton DAR, Ree RH (2013) Inferring phylogeny and introgression using RADseq data: an example from flowering plants (Pedicularis: Orobanchaceae). Systematic Biology 62(5): 689-706. http://dx.doi.org/10.1093/sysbio/syt032

Additionally, please cite the Dryad data package:

Eaton DAR, Ree RH (2013) Data from: Inferring phylogeny and introgression using RADseq data: an example from flowering plants (Pedicularis: Orobanchaceae). Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.bn281
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