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Annotation File for the Annotated Reference Transcriptome of the Eastern Oyster
The Excel file provides the annotation information, including original source transcriptome, for each contig in the reference transcriptome. The ReadMe files describes the... -
dedup_wf_001--965e8be9bd41c08528741d030583598a
A zip file containing two data files plus a third text file containing descriptions of the data files. See file "File annotations.txt" included int the archive for more... -
dedup_wf_001--2216a7c17adb929d62dc741c6ed299e0
The Nexus format file for the Bayesian inference analysis -
SAGUARO input file
The feature file required for SAGUARO analysis consisting of information on SNPs from 43 pupfishes. This file was converted into this format from a vcf file. -
ANIMAL_ID coding in capture file
Details of coding used in SPACECAP input files. In input files ANIMAL_IDs must be represented as sequential numbers. This file shows which ANIMAL_IDs correspond to which... -
Scripts and data for the linkage map
This compressed directory contains a series of perl sciprts and data files that we used to generate the linakge map for Timema cristinae. The specific steps we took, including... -
r37980778c78--ee2a042c889d7b37a1218529e883f322
This replication archive contains three files. A public use CPS file for January-May of 2019 and 2020, a file of dates for state school closures and stay-at-home orders, and a... -
gphocs
Included are data files, control files, log files and output files for G-PhoCS v1.2.3 (Gronau et al. 2011). Results summarized in G-PhoCs_results_120715.xlsx. -
Programita input files
This file contains all eight input files used for the Programita point-pattern analyses on the georeferenced Anthyllis vulneraria populations. This file contains geographical... -
Arlequin analysis file that contains all Hatcheria Cytb haplotypes
Arlequin haplotype file output from DNAsp. Place this file in the same directory as the Arlequin project file. -
Figure 3 code
This file includes the code used to create Figure 3. It includes data (in form of matrices) that was generated using separate files. One such data generating file is provided... -
dedup_wf_001--d72ac67493439d0d0558e0e198e7a360
This archive contains the raw, compressed FASTQ files as generated in the original MiSeq runs. This corresponds directly to the data uploaded to the NCBI SRA. Supporting... -
BEAST data files
We include the xml input file for the mtDNA BEAST analysis, along with resulting log file and maximum clade credibility tree. -
dedup_wf_001--97ff368da93f934117cd16538e83368e
These are the file associated with the geological time calibration analysis including the BEAST XML files. -
Aguirre_et_al_ data_ped_output
The zip file contains that data and pedigree files for the results presented in the manuscript. Also included are the example output files to be used in the attached .docx... -
Metadata file
A metadata file describing the contents of the data. There are six data files in total associated with this dataset. This metadata file provides background information on each... -
dedup_wf_001--aa146f0082ba7bc4220901b81e7cbed9
Included in this data set are three .csv files containing data, one .xlsx file with information on the naming of columns in the data files (information for each data file is in... -
dedup_wf_001--fa06448fa2b608736c441aa3128b661c
A nexus file for Carex scoparia and outgroups. Original binned data are in a separate file.
