Data from: SNP discovery in non-model organisms: strand-bias and base-substitution errors reduce conversion rates

Gonçalves da Silva A, Barendse W, Kijas JW, Barris WC, McWilliam S, Bunch RJ, McCulloch R, Harrison B, Hoelzel AR, England PR

Date Published: May 22, 2015

DOI: http://dx.doi.org/10.5061/dryad.n3bb2

 

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Title orpg_snpdev_glm_analysis
Downloaded 5 times
Description File contains an R script and set of data in a data folder. The R script contains descriptions of the data files, and reproduces the GLM analysis described in the paper
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Title orpg_sevenLibrary_velvetAssembly
Downloaded 1 time
Description AFG formatted output of de novo Velvet assembly of seven orange roughy Illumina libraries. Methods described in the paper.
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Title orpg_scaffolds_velvetAssembly
Downloaded 3 times
Description Contigs produced by de novo velvet assembly of seven orange roughy Illumina libraries. Contigs are scaffolded, separated by 20 or more Ns. SNP id matches the ContigID-<scaffoldNumber>_<base_position>, where scaffold number increases from 0, and identified the fragment of the contig obtained after splitting it at the Ns. Assembly methods described in the paper.
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Title 454Contigs
Downloaded 3 times
Download 454Contigs.afg (289.6 Mb)
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Title perl_scripts
Description PERL scripts provided in zip file. Instructions for use, and README file included in package.
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When using this data, please cite the original publication:

Gonçalves da Silva A, Barendse W, Kijas JW, Barris WC, McWilliam S, Bunch RJ, McCulloch R, Harrison B, Hoelzel AR, England PR (2015) SNP discovery in non-model organisms: strand-bias and base-substitution errors reduce conversion rates. Molecular Ecology Resources 15(4): 723-736. http://dx.doi.org/10.1111/1755-0998.12343

Additionally, please cite the Dryad data package:

Gonçalves da Silva A, Barendse W, Kijas JW, Barris WC, McWilliam S, Bunch RJ, McCulloch R, Harrison B, Hoelzel AR, England PR (2014) Data from: SNP discovery in non-model organisms: strand-bias and base-substitution errors reduce conversion rates. Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.n3bb2
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