Data from: AftrRAD: a pipeline for accurate and efficient de novo assembly of RADseq data

Sovic MG, Fries AC, Gibbs HL

Date Published: January 29, 2015

DOI: http://dx.doi.org/10.5061/dryad.sn034

 

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Title Compare_Stacks_vs_AftrRAD
Downloaded 79 times
Description Perl script to compare AftrRAD loci to Stacks loci. Requires a series of output files that are listed in a comment at the beginning of the script. Note that this script must be run prior to running Compare_PyRAD_vs_AftrRAD.pl. Also note that both of these scripts are starting points for analysis, and that any loci identified as not shared among programs should be double-checked manually. For questions regarding these scripts, visit the AftrRAD Google group.
Download Compare_Stacks_vs_AftrRAD.pl (11.19 Kb)
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Title Compare_PyRAD_vs_AftrRAD
Downloaded 16 times
Description Perl script to compare AftrRAD loci to PyRAD loci. Note that the Compare_Stacks_vs_AftrRAD.pl script must be run prior to running Compare_PyRAD_vs_AftrRAD.pl. Also note that both of these scripts are starting points for analysis, and that any loci identified as not shared among programs should be double-checked manually.
Download Compare_PyRAD_vs_AftrRAD.pl (12.94 Kb)
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Title Mallard Data
Downloaded 9 times
Description Fastq file containing data from mallard (Anas platyrhynchos) used in comparisons of AftrRAD, Stacks, and PyRAD.
Download rad12_pool2_51bp.fastq.tar.gz (551.2 Mb)
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Title RAD5_data.txt.tar
Downloaded 8 times
Description Fastq file containing data from eastern massasauga rattlesnake (Sistrurus catenatus) used in comparisons of AftrRAD, Stacks, and PyRAD.
Download RAD5_data.txt.tar.gz (606.1 Mb)
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Title Rattlesnake_Barcode_Info
Downloaded 10 times
Description Barcode information for rattlesnake fastq dataset.
Download Rattlesnake_Barcode_Info.txt (270 bytes)
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Title Mallard_Barcode_Info
Downloaded 6 times
Description Barcode information for Mallard fastq dataset.
Download Mallard_Barcode_Info.txt (217 bytes)
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When using this data, please cite the original publication:

Sovic MG, Fries AC, Gibbs HL (2015) AftrRAD: a pipeline for accurate and efficient de novo assembly of RADseq data. Molecular Ecology Resources 15(5): 1163–1171. http://dx.doi.org/10.1111/1755-0998.12378

Additionally, please cite the Dryad data package:

Sovic MG, Fries AC, Gibbs HL (2015) Data from: AftrRAD: a pipeline for accurate and efficient de novo assembly of RADseq data. Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.sn034
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