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Selection experiment data
This file contains adult survival data and juvenile population counts during the course of the selection experiment described in the associated publication. The proportion of... -
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... -
TLR1LB_All_genotypes2015
This is the output file with Phase results for TLR1LB in Berthelot's pipits. This is a fasta file but should be opened using a text editor such as Notepad -
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. -
TLR3_All_genotypes2015
This is the output file with Phase results for TLR3 in Berthelot's pipits. This is a fasta file but should be opened using a text editor such as Notepad -
grseasRasters
Compressed directory with growing season condition rasters. Data sources and calculation details are found in the Molecular Ecology article (Lasky et al. 2012). These rasters... -
Bayenv2 matlab export script - chromosome X
A script to export the output of Bayenv2 into a Matlab file (X chromosome). -
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... -
Bayenv output file for neutral SNPs
This is the output averaged across 10 runs of Bayenv using neutral SNPs, in 107 wolves and 6 ecotypes. The results in this file were used as a null for determining empirical... -
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... -
Bayenv2 intermediate file - raw BFs
An intermediate Matlab file containing raw Bayes factors from Bayenv2. -
dedup_wf_001--0101870255c7e1d6ac878088505eea75
All the data files and metadata files required to replicate the results of this paper. Scripts and readme are available on github https://github.com/ACharbonneau/creepy-barnacle -
TLR4_All_genotypes2015
This is the output file with Phase results for TLR4 in Berthelot's pipits. This is a fasta file but should be opened using a text editor such as Notepad -
Bayenv2 environment file
Standardised environmental variables in file format used for the Bayenv2 analysis. -
dedup_wf_001--6325010a9ab57efc5dfdeab918e81019
A script to export the output of Bayenv2 into a Matlab file (autosomes).