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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... -
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),... -
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. -
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... -
2497_indiv_5591_markers
The .ped file is a file of genotypes in plink style (see http://pngu.mgh.harvard.edu/~purcell/plink/). The column headings are: Family ID, Individual ID, Paternal ID, Maternal... -
Simulated Data
################################################## Introduction ################################################## The data was simulated with ms (Hudson, Bioinformatics,... -
dedup_wf_001--01488b983f5230a7efe236bfb3b5b746
Genetic data (G) and environmental data (E) infiles that were analyzed in this manuscript. These data sets were simulated in R according to the Wright-Fisher model with... -
Microsatellite_data
Explanations for datafile "Microsatellite data.xls" This datafile contains microsatellite genotype information of Mastomys natalensis. General comment: "-9" describes a... -
dedup_wf_001--495169c0b1b868a870778992844b4c8b
FASTA file. DNA sequences of MHC class II alleles which have been validated as true alleles according to criteria described in the paper, but have been detected only in a single... -
Contig sequences for P. leucopus transcriptome (fasta file)
Transcriptome contigs assembled from raw SOLiD 5500 xl sequencing reads using Trinity. Only contigs with high-quality open reading frames identified from Transdecoder and... -
wrapper perl scripts for simulations
This compressed directory contains a set of perl scripts that were used to run the R Wright-Fisher simulations and generate the data sets analyzed in this paper.
