[go: up one dir, main page]
More Web Proxy on the site http://driver.im/ Skip to main content
Springer Nature Link
Log in

STRUCTURE HARVESTER: a website and program for visualizing STRUCTURE output and implementing the Evanno method

  • Technical Note
  • Published:
Conservation Genetics Resources Aims and scope Submit manuscript

Abstract

We present STRUCTURE HARVESTER (available at http://taylor0.biology.ucla.edu/structureHarvester/), a web-based program for collating results generated by the program STRUCTURE. The program provides a fast way to assess and visualize likelihood values across multiple values of K and hundreds of iterations for easier detection of the number of genetic groups that best fit the data. In addition, STRUCTURE HARVESTER will reformat data for use in downstream programs, such as CLUMPP.

This is a preview of subscription content, log in via an institution to check access.

Access this article

Log in via an institution

Subscribe and save

Springer+ Basic
£29.99 /Month
  • Get 10 units per month
  • Download Article/Chapter or eBook
  • 1 Unit = 1 Article or 1 Chapter
  • Cancel anytime
Subscribe now

Buy Now

Price includes VAT (United Kingdom)

Instant access to the full article PDF.

Institutional subscriptions

Fig. 1
Fig. 2
Fig. 3

References

  • Campana MG, Hunt HV, Jones H, White J (2011) CorrSieve: software for summarizing and evaluating Structure output. Mol Ecol Res 11:349–352

    Article  CAS  Google Scholar 

  • Earl DA, Louie KD, Bardeleben C, Swift CC, Jacobs DK (2010) Rangewide microsatellite phylogeography of the endangered tidewater goby, Eucyclogobius newberryi (Teleostei: Gobiidae), a genetically subdivided coastal fish with limited marine dispersal. Conserv Genet 11:103–114

    Article  Google Scholar 

  • Evanno G, Regnaut S, Goudet J (2005) Detecting the number of clusters of individuals using the software STRUCTURE: a simulation study. Mol Ecol 14:2611–2620

    Article  PubMed  CAS  Google Scholar 

  • Falush D, Stephens M, Pritchard JK (2003) Inference of population structure using multilocus genotype data: linked loci and correlated allele frequencies. Genetics 164:1567–1587

    PubMed  CAS  Google Scholar 

  • Falush D, Stephens M, Pritchard JK (2007) Inference of population structure using multilocus genotype data: dominant markers and null alleles. Mol Ecol Notes 7:574–578

    Article  PubMed  CAS  Google Scholar 

  • François O, Durand E (2010) Spatially explicit Bayesian clustering models in population genetics. Mol Ecol Res 10:773–784

    Article  Google Scholar 

  • Hubisz MJ, Falush D, Stephens M, Pritchard JK (2009) Inferring weak population structure with the assistance of sample group information. Mol Ecol Res 9:1322–1332

    Article  Google Scholar 

  • Jakobsson M, Rosenberg NA (2007) CLUMPP: a cluster matching and permutation program for dealing with label switching and multimodality in analysis of population structure. Bioinformatics 23:1801–1806

    Article  PubMed  CAS  Google Scholar 

  • Latch EK, Dharmarajan G, Glaubitz JC, Rhodes OE Jr (2006) Relative performance of Bayesian clustering software for inferring population substructure and individual assignment at low levels of population differentiation. Conserv Genet 7:295–302

    Article  Google Scholar 

  • Pritchard JK, Stephens M, Donnelly P (2000) Inference of population structure using multilocus genotype data. Genetics 155:945–959

    PubMed  CAS  Google Scholar 

  • Rosenberg NA (2004) DISTRUCT: a program for the graphical display of population structure. Mol Ecol 4:137–138

    Google Scholar 

  • Schwartz MK, McKelvey KS (2009) Why sampling scheme matters: the effect of sampling scheme on landscape genetic results. Conserv Genet 10:441–452

    Article  Google Scholar 

Download references

Acknowledgments

We thank J Goudet for improving our implementation of the Evanno method (personal communications). We thank C Taylor at University of California at Los Angeles for hosting the website. This work was supported by the National Cancer Institute grants 1U24CA143858-01 and 5R21CA135937.

Author information

Authors and Affiliations

  1. Center for Biomolecular Science and Engineering, Biomolecular Engineering Department, University of California, Santa Cruz, Mail Stop: CBSE/ITI; 1156 High Street, Santa Cruz, CA, 95064, USA

    Dent A. Earl

  2. Ecology and Evolutionary Biology, University of California, Irvine, Irvine, CA, 92697, USA

    Bridgett M. vonHoldt

Authors
  1. Dent A. Earl
    View author publications

    You can also search for this author in PubMed Google Scholar

  2. Bridgett M. vonHoldt
    View author publications

    You can also search for this author in PubMed Google Scholar

Corresponding author

Correspondence to Dent A. Earl.

Rights and permissions

Reprints and permissions

About this article

Cite this article

Earl, D.A., vonHoldt, B.M. STRUCTURE HARVESTER: a website and program for visualizing STRUCTURE output and implementing the Evanno method. Conservation Genet Resour 4, 359–361 (2012). https://doi.org/10.1007/s12686-011-9548-7

Download citation

  • Received:

  • Accepted:

  • Published:

  • Issue Date:

  • DOI: https://doi.org/10.1007/s12686-011-9548-7

Keywords

Search

Navigation