GenAlEx pipeline

GenAlEx specifications

Information


Unique identifier OMICS_11080
Name GenAlEx
Alternative name Genetic Analysis in Excel
Software type Package/Module
Interface Graphical user interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages Visual Basic
Computer skills Medium
Version 6.502
Stability Stable
Maintained Yes

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Maintainer


  • person_outline Rod Peakall <>

Publications for Genetic Analysis in Excel

GenAlEx IN pipelines

 (8)
2018
PMCID: 5774298
PMID: 29362690
DOI: 10.7717/peerj.4173

[…] of ne for a stepwise mutation model (ssm; kimura & ohta, 1978), following the nei’s formula: ne = (1∕[1 − he]2 − 1)∕8μ (nei, 1987); where he corresponds to expected heterozygosity calculated in genalex and μ corresponds to the mutation rates of microsatellites. we used two mutation rates for μ : (a) 1 × 10−2 and (b) 1.0 × 10−5 mutations / locus / generation, both of which were based […]

2017
PMCID: 5411102
PMID: 28459870
DOI: 10.1371/journal.pone.0176474

[…] environmental stresses [5, 38] were used for analysis across ecoregions. removal of duplicated snps resulted in a final list with 66 snps in the hereford dataset and 64 snps in the nelore dataset. genalex 6.501 [39] was used to determine the allele frequencies of snps in each ecoregion and nelore dataset. comparisons among subpopulations and breeds were performed with data in the “a/b” format, […]

2017
PMCID: 5485074
PMID: 28214367
DOI: 10.1111/mec.14066

[…] f st and geographical distance was explored by a mantel test of matrix correlation using genepop 4.0.10 (rousset 2008). an additional measure of differentiation (jost's d est) was calculated in genalex 6.501 (peakall & smouse 2012) using all samples. population substructuring was assessed using pca plots calculated in genalex 6.501, and structure analysis was run 10 times using […]

2017
PMCID: 5485074
PMID: 28214367
DOI: 10.1111/mec.14066

[…] measure of differentiation (jost's d est) was calculated in genalex 6.501 (peakall & smouse 2012) using all samples. population substructuring was assessed using pca plots calculated in genalex 6.501, and structure analysis was run 10 times using structure 2.3.4 (pritchard et al. 2000; falush et al. 2003; hubisz et al. 2009) with an admixture model for k 1‐10, 20 000 mcmc reps […]

2017
PMCID: 5498645
PMID: 28680075
DOI: 10.1038/s41598-017-04849-5

[…] k values 1, 2, 3, 4 and 5 (fig. s4). to further understand the distribution of genetic variation across geography, we calculated principal components in genodive 2.055 and principal coordinates in genalex 6.562, 63. pca analysis of both snps and microsatellites are shown in the main text (fig. 2) and principal coordinates in the supplement (fig. s5)., to test for contemporary gene flow, […]

GenAlEx institution(s)
Evolution, Ecology and Genetics, Research School of Biology, The Australian National University, Canberra, Australia; Department of Ecology, Evolution and Natural Resources, School of Environmental and Biological Sciences, Rutgers University, NB, USA

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