Data from: Construction of a species-level tree of life for the insects and utility in taxonomic profiling

Chesters D

Date Published: October 27, 2016

DOI: http://dx.doi.org/10.5061/dryad.27114

 

Files in this package

Content in the Dryad Digital Repository is offered "as is." By downloading files, you agree to the Dryad Terms of Service. To the extent possible under law, the authors have waived all copyright and related or neighboring rights to this data. CC0 (opens a new window) Open Data (opens a new window)

Title pipeline_files.tar
Downloaded 68 times
Description Set of files required by the pipeline. Includes: InsectaCoreOrthologs (insect core orthologs processed and in single file); InsMito_sumtrees.procd (example summary tree from the mitogenome analysis, which can be used to constrain a species level tree); H03InsProf.muscle.fas (insect COI barcode profile based on Hebert et al. 2003); 12S_profile (set of 12S sequences); treePL_config_file (configuration file for treePL)
Download pipeline_files.tar.gz (2.419 Mb)
Details View File Details
Title transcriptomes_supermatrix.nex
Downloaded 10 times
Description supermatrix in nexus format, built from nuclear orthologs taken from 33 transcriptomes, including all insect orders
Download transcriptomes_supermatrix.nex.gz (6.307 Mb)
Details View File Details
Title mitogenome_supermatrix.nex
Downloaded 10 times
Description Supermatrix of protein coding genes of 806 mitogenomes
Download mitogenome_supermatrix.nex.gz (956.1 Kb)
Details View File Details
Title specieslevel_supermatrix.nex
Downloaded 26 times
Description Species-level insect supermatrix. In nexus format. 8 genes and 49338 species.
Download specieslevel_supermatrix.nex.gz (13.89 Mb)
Details View File Details
Title species_level_tree
Downloaded 39 times
Description Species level tree of life for insects, in Newick format. Can be input into high capacity tree viewers and also used in further downstream analysis
Download species_level_tree.nwk (3.346 Mb)
Details View File Details
Title species_level_tree.processed
Downloaded 37 times
Description Species level tree in Newick format. Processed: has been rerooted and made ultrametric. Can be read with high capacity tree viewing software.
Download species_level_tree.processed.nwk (1.964 Mb)
Details View File Details
Title Constraints
Downloaded 14 times
Description Set of relational constraints used in species level inference. Human readable in tab delimited text format, with Linux newlines.
Download relational_constraints_tabdelim (92.59 Kb)
Details View File Details
Title Development Commands and Notes
Downloaded 41 times
Description Text file containing all commands used during development of this project. For user friendly implementation of the central protocol, see SOPHI documents instead.
Download ITOL1_Development_Commands_and_Notes.txt (250.6 Kb)
Details View File Details
Title Online_Supplemental_Document_PDF
Downloaded 46 times
Description Online Supplement. PDF format. Contains supplementary methods, results, discussion, references, figures and tables.
Download Online_Supplemental_Document_PDF.pdf (723.8 Kb)
Details View File Details
Title species_level_tree_HR
Downloaded 28 times
Description as per figure 4 of the paper, except high resolution with more complete labeling. png image format.
Download species_level_tree_HR.png (15.36 Mb)
Details View File Details

When using this data, please cite the original publication:

Chesters D (2017) Construction of a species-level tree-of-life for the insects and utility in taxonomic profiling. Systematic Biology 66(3): 426-439. http://dx.doi.org/10.1093/sysbio/syw099

Additionally, please cite the Dryad data package:

Chesters D (2016) Data from: Construction of a species-level tree of life for the insects and utility in taxonomic profiling. Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.27114
Cite | Share
Download the data package citation in the following formats:
   RIS (compatible with EndNote, Reference Manager, ProCite, RefWorks)
   BibTex (compatible with BibDesk, LaTeX)

Search for data

Be part of Dryad

We encourage organizations to: