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dedup_wf_001--0d70ba401028555fe4c68840718be5fd
Standard input file for BLAST2GO. This file can be loaded directly into .jnlp executable file downloaded from BLAST2GO website. Includes BLASTX results against NCBI’s... -
Information for BAM files on NCBI SRA
BAM files for 117 wolves, separated into genic and neutral regions. See paper text for details on alignment and mapping pipeline. -
dedup_wf_001--417836f8e8784abda81d93cfec196e64
Genotypes for European lines of A. thaliana (Chromosome 1) genotyped at a density of one SNP per kb. These data are used in our tutorial example 2 and supplementary file 2. Data... -
D. melanogaster median Fst and latitude
D. melanogaster Fst values for pair-wise population comparisons and the latitude of each population. The analysis of isolation by distance used the median Fst (median.Fst) and... -
Information on SNPs identified from transcriptome data (vcf file)
SNPs identified from transcriptome alignment files in variant call format. SNPs were identified using GATK. Parameters and filters for calling SNPs are listed in header.... -
Alternative splice events identified in Peromyscus leucopus transcriptome
This FASTA file contains two sequences for each alternative splicing sequence, labeled as upper and lower splice, that was identified in the Peromyscus leucopus transcriptome. -
Origin and number of frogs used for mtDNA analysis
Populations, geographic coordinates and sample sizes of samples used for mtDNA analysis. The column “Microsat No.*” refers to the numbering of populations in Table S1 (new),... -
26snp_reference data for analysis of assignment
Reference data (individual genetic data (26 SNP's for each ind) for the North sea and coastal component). SNP's are described in paper.The other file contains inds that was... -
Bayenv2 matlab export script - chromosome X
A script to export the output of Bayenv2 into a Matlab file (X chromosome). -
Pairwise FST estimates for autosomal SNPs
A Matlab file containing 3663890 autosomal SNPs, their pairwise FST estimates, and P-values for each SNP derived from coalescent simulations. -
Plant trnL references and beetle derived variants
A fasta file of plant sequences amplified for this paper. Sequences are not aligned globally but beetle variants are aligned to each plant reference. The description section of... -
Demographic estimation data - simulated FST autosomes
A Matlab file containing FST estimated on simulated data from the demographic estimation analysis by means of Approximate Bayesian Computation. Contains autosomal SNPs. -
perl script to run quantiNEMO simulations
This is a wrapper script that I wrote to run quantiNEMO to generate the simulated data files that were analyzed in the paper. -
ABC rejection data - X chromosome
A Matlab file containing the Approximate Bayesian Computation rejection matrix (X chromosome). -
2497_indiv_phenotype
2497_indiv_phenotype.txt file. This file contains the phenotypes used in the analysis. Note that phenotypes are not available for all genotyped individuals. For more information... -
dedup_wf_001--725333b1cf8f0274337c41e6125e7928
Whole-genome site frequency spectrum (SFS) that includes the proportion of sites that are fixed to chimpanzee (x=n). This file was used as background SFS for SweepFinder2.
