Data from: Targeted multiplex next-generation sequencing: Advances in techniques of mitochondrial and nuclear DNA sequencing for population genomics

 

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Title FinWhale 43loci_Array1_fasta.txt
Downloaded 26 times
Description FASTA file of fin whale nuclear loci for capture array design and sequence read assembly.
Download FinWhale 43loci_Array1_fasta.txt (19.18 Kb)
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Title Beaked_75nucloci_fasta
Downloaded 31 times
Description FASTA file of beaked whale nuclear loci for capture array design and sequence read assembly.
Download Beaked_75nucloci_fasta.txt (60.49 Kb)
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Title Cmyd_nucFrags_fasta
Downloaded 26 times
Description FASTA file of green turtle nuclear loci for capture array design and sequence read assembly.
Download Cmyd_nucFrags_fasta.txt (62.21 Kb)
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Title SpermWhale_50nucSeqs_SNPdisco_Fasta
Downloaded 28 times
Description FASTA file of sperm whale nuclear loci for capture array design and sequence read assembly.
Download SpermWhale_50nucSeqs_SNPdisco_Fasta.txt (30.64 Kb)
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Title Spinner-Spotted_85nuc_loci_Fasta
Downloaded 22 times
Description FASTA file of bottlenose dolphin nuclear loci for capture array design and sequence read assembly of spinner and spotted dolphins.
Download Spinner-Spotted_85nuc_loci_Fasta.txt (88.05 Kb)
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Title BeakedWhale_array
Downloaded 27 times
Description eArray data files for capture array design
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Title Cmyd_array
Downloaded 58 times
Description eArray data files for capture array design
Download Cmyd_array.zip (5.538 Mb)
Download README.txt (1.293 Kb)
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Title FinWhale_array
Downloaded 58 times
Description eArray data files for capture array design
Download FinWhale_array.zip (4.704 Mb)
Download README.txt (1.293 Kb)
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Title SpermWhale_Array
Downloaded 41 times
Description eArray data files for capture array design
Download SpermWhale_Array.zip (4.777 Mb)
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Title Spinner-SpottedDolphin_Array
Downloaded 58 times
Description eArray data files for capture array design
Download Spinner-SpottedDolphin_Array.zip (6.027 Mb)
Download README.txt (1.293 Kb)
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Title merged vcf to genotype
Downloaded 68 times
Description R script for converting 'vcf' data from SNP pipeline to a single datafile of genotype and read counts for SNP discovery and genotyping.
Download merged vcf to genotype.r (3.375 Kb)
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Title ngs-mtdna-pipeline-v3.2
Downloaded 144 times
Description Mitogenome assembly pipeline R script
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Title ngs-snp-pipeline-v3.2
Downloaded 176 times
Description nuclear locus assembly and SNP discovery pipeline R scripts.
Download ngs-snp-pipeline-v3.2.r (10.12 Kb)
Download README.txt (2.073 Kb)
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Title ngs.funcs
Downloaded 24 times
Description R data file used by ngs SNP and mtDNA pipeline scripts.
Download ngs.funcs.rdata (124.6 Kb)
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When using this data, please cite the original publication:

Hancock-Hanser B, Frey A, Leslie MS, Dutton PH, Archer FI, Morin PA (2013) Targeted multiplex next-generation sequencing: Advances in techniques of mitochondrial and nuclear DNA sequencing for population genomics. Molecular Ecology Resources 13(2): 254–268. http://dx.doi.org/10.1111/1755-0998.12059

Additionally, please cite the Dryad data package:

Hancock-Hanser B, Frey A, Leslie MS, Dutton PH, Archer FI, Morin PA (2013) Data from: Targeted multiplex next-generation sequencing: Advances in techniques of mitochondrial and nuclear DNA sequencing for population genomics. Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.cv35b
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