Data from: Dissection by genomic and plumage variation of a geographically complex hybrid zone between two Australian non-sister parrot species, Platycercus adscitus and P. eximius

Shipham A, Joseph L, Schmidt DJ, Drew A, Mason I, Hughes JM

Date Published: July 11, 2018

DOI: https://doi.org/10.5061/dryad.794436q

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Title STRUCTURE_Data_AllIndividuals
Downloaded 4 times
Description Input file used in the program STRUCTURE. This file includes data from 1945 SNPs and 81 rosellas.
Download STRUCTURE_Data_AllIndividuals.structure (648.9 Kb)
Download README.txt (859 bytes)
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Title STRUCTURE_Data_EasternRosellas
Downloaded 4 times
Description Input file used in the program STRUCTURE. This file includes data from 2149 SNPs and 22 eastern rosellas.
Download STRUCTURE_Data_EasternRosellas.STRUCTURE (208.4 Kb)
Download README.txt (843 bytes)
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Title PCA_Data
Downloaded 6 times
Description PLINK file used to conduct the Principle Components Analysis (PCA) with the glPCA function in the adegenet R package. This file includes data from 1945 SNPs and 81 individuals.
Download PCA_Data.raw (358.8 Kb)
Download README.txt (1.315 Kb)
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Title FST_files
Downloaded 2 times
Description The compressed file titled 'FST_files' contains six Fst output files generated by STACKS (three generated for each of two analyses). Each file contains Fst data comparing two of the three groups described in the paper (i.e. 'eastern', 'pale-headed' and 'hybrid' rosella groups). This data was used by STACKS to calculate the mean Fst values in Table 2 of the paper.
Download FST_files.zip (473.4 Kb)
Download README.txt (1.942 Kb)
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Title INTROGRESS_Data_77Individuals
Downloaded 5 times
Description RADseq data used for analyses in the Introgress R package. This file contains data from 77 rosellas and 152 loci shown to display interspecific alele frequency differentials greater than or equal to 0.8. The file is a modification of the 'haplotypes.tsv' file generated by STACKS.
Download INTROGRESS_Data_77Individuals.txt (50.90 Kb)
Download README.txt (2.425 Kb)
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Title INTROGRESS_Data_46Individuals
Downloaded 3 times
Description RADseq data used for analyses in the Introgress R package. This file contains data from 46 rosellas and 128 loci shown to display interspecific alele frequency differentials greater than or equal to 0.8. The file is a modification of the 'haplotypes.tsv' file generated by STACKS.
Download INTROGRESS_Data_46Individuals.txt (26.01 Kb)
Download README.txt (2.187 Kb)
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Additionally, please cite the Dryad data package:

Shipham A, Joseph L, Schmidt DJ, Drew A, Mason I, Hughes JM (2018) Data from: Dissection by genomic and plumage variation of a geographically complex hybrid zone between two Australian non-sister parrot species, Platycercus adscitus and P. eximius. Dryad Digital Repository. https://doi.org/10.5061/dryad.794436q
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