Genodive specifications

Information


Unique identifier OMICS_20130
Software type Package/Module
Interface Command line interface
Restrictions to use None
Input data The input files of both programs consist of tab-delimited text-files in specific formats.
Operating system Unix/Linux, Mac OS, Windows
Computer skills Advanced
Maintained No

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Genodive article

Genodive citations

 (4)
2016
PMCID: 5080595

[…] analyses. homogeneity of haplotype distributions was tested using single-level analysis of molecular variance (amova), and pairwise fst values and nei’s genetic distance19 were calculated using genodive20 using 10,000 permutations to test for significance. a neighbour-joining (nj) tree21 was created in mega22 using nei’s genetic distance. the effective number of breeders (nb) was estimated […]

2016
PMCID: 5062852

[…] among king penguin colonies was assessed using several different methods. firstly, the weir and cockerham [56] unbiased estimator of f st was calculated between all pairs of colonies using genodive v2.0b27 [57]. the hypothesis of departure from panmixia was tested with 5000 random permutations of the data to determine the statistical significance of each pairwise f st value […]

2016
PMCID: 4741071

[…] & gentleman, 1996). the entire data set was checked for variability and departures from hardy–weinberg equilibrium (hwe) and the fixation index (fis) was calculated using the software package genodive v2.0b23 (meirmans & van tienderen, 2004; meirmans, 2012). the benjamini hochberg method (i.e., the false discovery rate) was used to correct for multiple comparisons of hwe (benjamini […]

2014
PMCID: 4032236

[…] population in the two sampling years [22]., fstat was used to estimate global fst values for all populations sampled and separately for the two sampling years. pairwise fst values were calculated in genodive and significance was assessed using 100,000 permutations. bonferroni correction was applied to correct for multiple comparisons. an isolation-by-distance analysis was carried out using […]

Genodive institution(s)
Institute for Biodiversity and Ecosystem Dynamics, Universiteit van Amsterdam, Amsterdam, Netherlands

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