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MEC-15-690-Dryad
This zip file extracts data used in Roy et al MEC-15-0690. The ".txt" file is the raw microsatellite scores in number of repeats formatted for the Convert.exe program. The... -
Structure infile
File contains input data file for Structure analysis. In first column is sample ID (nz=New Zealand, uk=United Kingdom, mc=Macreas flat, t=Twizel, ml=Molesworth, p=Palemrston, A=... -
structure_input
This is a tab-delimited text file containing the nuclear marker genotypes at 9 microsatellite markers and 3 coding genes for 409 Radix snails from the core and extended... -
Migrate - SanPedro
MIGRATE-n file containing the microsatellite data (14 markers) of the freshwater fish Galaxias platei in the San Pedro system in Nothern Patagonia. The parmfile for this run is... -
dedup_wf_001--66817b660c5aafb9d7466e488a12d40f
Includes fasta sequence files, microsatellite genotype files, as well as other input files -
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 -
Sampling locations.
*Transect refers to the straight distance along which samples were collected at each site. The three sites for P. jubatus are contained within the Munchique National Park (Fig. 2). -
dedup_wf_001--45964d5c559cf3fccc57c48f7ca7ea85
This file contains shell scripts associated with the ddRAD-Seq portion of this study -
Genotype data
The TalentiEtAl_2017.ped file contains the unphased genotype data for all the 929 animals described in the paper: "Genomic analysis suggests KITLG is responsible for a roan... -
Distance_matrices
Standarized distance matrices (Genetic, SST and geographic distance) used for Mantel test, Partial mantel test and MMRR -
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 -
dedup_wf_001--647d428a4ab8b0cb9f2ae481821da7b3
This file contains the raw data files for both the full genotyping dataset (including individuals with 3rd alleles) as well as a STRUCTURE input file that is a subset of the... -
Tree Files
-Astral_Bootstrap.tre newick formatted 100 bootstrap replicates from the COMPLETE ASTRAL-II species analysis -Gene_Trees_Full.tre newick formatted 498 "best" gene trees from... -
Sepulveda-Villet & Stepien 2012 - yellow perch broadscale populations
Arlequin formatted input file including all sampling sites used in study. File includes 664 individuals with 15 nuclear microsatellite loci. -
dedup_wf_001--aa2ff76d3d22a833dc1bbdda7b9a2cf2
This zip file contains shell scripts used in the RNA-Seq portion of this study. -
Perl scripts
PERL scripts provided in zip file. Instructions for use, and README file included in package. -
Structure analyses
This folder contains the data, program files, and scripts to run the structure analyses. Sub-folders are by genome location (all loci, X-linked, autosomal) and by subset of...
