Data from: Genome-wide signature of local adaptation linked to variable CpG methylation in oak populations

Platt A, Gugger PF, Sork VL, Pellegrini M

Date Published: May 6, 2015

DOI: http://dx.doi.org/10.5061/dryad.0f839

 

Files in this package

Content in the Dryad Digital Repository is offered "as is." By downloading files, you agree to the Dryad Terms of Service. To the extent possible under law, the authors have waived all copyright and related or neighboring rights to this data. CC0 (opens a new window) Open Data (opens a new window)

Title nuc_polys.fst
Downloaded 6 times
Description VCF describing non-C/T polymorphisms
Download nuc_polys.fst.vcf (5.283 Mb)
Details View File Details
Title meth_polys.CG.fst
Downloaded 5 times
Description VCF describing C/T polymorphisms followed by a G nucleotide
Download meth_polys.CG.fst.vcf (2.478 Mb)
Details View File Details
Title meth_polys.CHG.2.fst
Downloaded 3 times
Description VCF describing C/T polymorphisms followed by HG nucleotides
Download meth_polys.CHG.2.fst.vcf (1.200 Mb)
Details View File Details
Title venn.0.1
Downloaded 3 times
Description Summaries of polymorphisms with minor allele frequency greater than 0.1 categorized by contig in which they are found, type of polymorphism, minor allele frequency, F_ST, arcsine transformed F_ST, and contig type. Type of polymorphism is SNP for non C/T polymorphisms, CGP for C/T polymorphisms followed by a G, or CHGP for C/T polymorphisms followed by HG. Contig type is 1) contig contains only polymorphisms of type SNP 2) only type CGP 3) only CHGP 4) both SNP and CGP together 5) both CGP and CHGP 6) both SNP and CHGP 7) all three types.
Download venn.0.1.tsv (1.738 Mb)
Details View File Details
Title batch_1
Downloaded 4 times
Description VCF output from Stacks.
Download batch_1.vcf (16.16 Mb)
Details View File Details
Title batch_1.catalog.tags
Downloaded 3 times
Description Catalog file from Stacks output
Download batch_1.catalog.tags.tsv (17.99 Mb)
Details View File Details
Title batch_1.sumstats
Downloaded 3 times
Description Summary stats output from Stacks
Download batch_1.sumstats.tsv (19.14 Mb)
Details View File Details

When using this data, please cite the original publication:

Platt A, Gugger PF, Sork VL, Pellegrini M (2015) Genome-wide signature of local adaptation linked to variable CpG methylation in oak populations. Molecular Ecology 24(15): 3823-3830. http://dx.doi.org/10.1111/mec.13230

Additionally, please cite the Dryad data package:

Platt A, Gugger PF, Sork VL, Pellegrini M (2015) Data from: Genome-wide signature of local adaptation linked to variable CpG methylation in oak populations. Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.0f839
Cite | Share
Download the data package citation in the following formats:
   RIS (compatible with EndNote, Reference Manager, ProCite, RefWorks)
   BibTex (compatible with BibDesk, LaTeX)

Search for data

Be part of Dryad

We encourage organizations to: