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GenAlEx 6.5: genetic analysis in Excel. Population genetic software for teaching and research--an update.

Abstract

SUMMARY

GenAlEx: Genetic Analysis in Excel is a cross-platform package for population genetic analyses that runs within Microsoft Excel. GenAlEx offers analysis of diploid codominant, haploid and binary genetic loci and DNA sequences. Both frequency-based (F-statistics, heterozygosity, HWE, population assignment, relatedness) and distance-based (AMOVA, PCoA, Mantel tests, multivariate spatial autocorrelation) analyses are provided. New features include calculation of new estimators of population structure: G'(ST), G''(ST), Jost's D(est) and F'(ST) through AMOVA, Shannon Information analysis, linkage disequilibrium analysis for biallelic data and novel heterogeneity tests for spatial autocorrelation analysis. Export to more than 30 other data formats is provided. Teaching tutorials and expanded step-by-step output options are included. The comprehensive guide has been fully revised.

AVAILABILITY AND IMPLEMENTATION

GenAlEx is written in VBA and provided as a Microsoft Excel Add-in (compatible with Excel 2003, 2007, 2010 on PC; Excel 2004, 2011 on Macintosh). GenAlEx, and supporting documentation and tutorials are freely available at: http://biology.anu.edu.au/GenAlEx.

CONTACT

rod.peakall@anu.edu.au.

Links

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  • Authors+Show Affiliations

    ,

    Evolution, Ecology and Genetics, Research School of Biology, The Australian National University, Canberra ACT 0200, Australia. rod.peakall@anu.edu.au

    Source

    Bioinformatics (Oxford, England) 28:19 2012 Oct 1 pg 2537-9

    MeSH

    Computational Biology
    Gene Frequency
    Genetic Markers
    Genetics, Population
    Haplotypes
    Linkage Disequilibrium
    Software
    User-Computer Interface

    Pub Type(s)

    Journal Article

    Language

    eng

    PubMed ID

    22820204

    Citation

    TY - JOUR T1 - GenAlEx 6.5: genetic analysis in Excel. Population genetic software for teaching and research--an update. AU - Peakall,Rod, AU - Smouse,Peter E, Y1 - 2012/07/20/ PY - 2012/7/20/aheadofprint PY - 2012/7/24/entrez PY - 2012/7/24/pubmed PY - 2013/6/6/medline SP - 2537 EP - 9 JF - Bioinformatics (Oxford, England) JO - Bioinformatics VL - 28 IS - 19 N2 - SUMMARY: GenAlEx: Genetic Analysis in Excel is a cross-platform package for population genetic analyses that runs within Microsoft Excel. GenAlEx offers analysis of diploid codominant, haploid and binary genetic loci and DNA sequences. Both frequency-based (F-statistics, heterozygosity, HWE, population assignment, relatedness) and distance-based (AMOVA, PCoA, Mantel tests, multivariate spatial autocorrelation) analyses are provided. New features include calculation of new estimators of population structure: G'(ST), G''(ST), Jost's D(est) and F'(ST) through AMOVA, Shannon Information analysis, linkage disequilibrium analysis for biallelic data and novel heterogeneity tests for spatial autocorrelation analysis. Export to more than 30 other data formats is provided. Teaching tutorials and expanded step-by-step output options are included. The comprehensive guide has been fully revised. AVAILABILITY AND IMPLEMENTATION: GenAlEx is written in VBA and provided as a Microsoft Excel Add-in (compatible with Excel 2003, 2007, 2010 on PC; Excel 2004, 2011 on Macintosh). GenAlEx, and supporting documentation and tutorials are freely available at: http://biology.anu.edu.au/GenAlEx. CONTACT: rod.peakall@anu.edu.au. SN - 1367-4811 UR - https://www.unboundmedicine.com/medline/citation/22820204/GenAlEx_6_5:_genetic_analysis_in_Excel__Population_genetic_software_for_teaching_and_research__an_update_ L2 - http://bioinformatics.oxfordjournals.org/cgi/pmidlookup?view=long&pmid=22820204 ER -