Genepop statistics

info info

Citations per year

Number of citations per year for the bioinformatics software tool Genepop
info

Tool usage distribution map

This map represents all the scientific publications referring to Genepop per scientific context
info info

Associated diseases

This word cloud represents Genepop usage per disease context
info

Popular tool citations

chevron_left Coalescent simulation chevron_right
Want to access the full stats & trends on this tool?

Protocols

Genepop specifications

Information


Unique identifier OMICS_17393
Name Genepop
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
License CeCILL version 2.1, GNU General Public License version 3.0
Computer skills Advanced
Version 4.6
Stability Stable
Maintained Yes

Download


download.png
conda.png

Versioning


No version available

Maintainer


  • person_outline François Rousset

Additional information


http://genepop.curtin.edu.au/

Publications for Genepop

Genepop citations

 (2000)
library_books

Complex signatures of genomic variation of two non model marine species in a homogeneous environment

2018
BMC Genomics
PMCID: 5944137
PMID: 29743012
DOI: 10.1186/s12864-018-4721-y

[…] maximum coverage to 500 to call SNPs at this stage. As Popoolation2 is not capable of calculating diversity indices such as Tajima’s π and Watterson’s θW, total heterozygosity was calculated from the GenePop file used to detect outliers (see section below) using Genodive [].To assess the effects of population-specific resampling on intraspecific variation, we compared the frequencies of SNPs calcu […]

call_split

Genetic characterization of indigenous goat breeds in Romania and Hungary with a special focus on genetic resistance to mastitis and gastrointestinal parasitism based on 40 SNPs

2018
PLoS One
PMCID: 5942826
PMID: 29742137
DOI: 10.1371/journal.pone.0197051
call_split See protocol

[…] using SNP viewer software (version 1.99, Hoddesdon, UK). The raw allele calls received from LGC Genomics were analyzed with KlusterCaller software from LGC Genomics. Linkage analysis was performed by GENEPOP []. POPGENE 1.32 [] was used to calculate the deviation from Hardy-Weinberg equilibrium (HWE), observed (Ho) and expected (He) heterozygosity values for each studied breed, Polymorphic Informa […]

library_books

Widespread plant specialization in the polyphagous planthopper Hyalesthes obsoletus (Cixiidae), a major vector of stolbur phytoplasma: Evidence of cryptic speciation

2018
PLoS One
PMCID: 5940214
PMID: 29738577
DOI: 10.1371/journal.pone.0196969

[…] on, as well as overall and per host-plant association. Deviations from Hardy-Weinberg (HW) were estimated using Micro-checker []. Linkage disequilibrium (LD) was checked with the web-based version of Genepop [] using the settings 1,000 batches and 10,000 de-memorizations and iterations per batch. The sex-linked locus C147 was omitted in both analyses. Significance levels for multiple comparisons w […]

call_split

Genetic structure of South African Nguni (Zulu) sheep populations reveals admixture with exotic breeds

2018
PLoS One
PMCID: 5919407
PMID: 29698497
DOI: 10.1371/journal.pone.0196276
call_split See protocol

[…] st for departure from Hardy-Weinberg equilibrium (HWE) was done using the Markov Chain Monte Carlo method (20 batches, 5,000 iterations per batch and a dememorisation number of 10,000) implemented in GENEPOP version 4.0 software []. Level of significance were adjusted using false discovery rate (FDR) procedure [].The FIS for each population was calculated via bootstrapping using 1,000 replicates w […]

library_books

Genetic Evaluation of Natural Populations of the Endangered Conifer Thuja koraiensis Using Microsatellite Markers by Restriction Associated DNA Sequencing

2018
Genes
PMCID: 5924560
PMID: 29673217
DOI: 10.3390/genes9040218

[…] ), and fixation index (F), were assessed at each locus and population levels using GeneAlEx version 6.5 []. The Hardy-Weinberg equilibrium (HWE) at each locus for each population was determined using GENEPOP version 4.2 [,]. The polymorphism information content (PIC) values were calculated using the program PIC_CALC version 0.6 []. To estimate the genetic variation among and within populations, th […]

call_split

Genetic diversity and distribution of Senegalia senegal (L.) Britton under climate change scenarios in West Africa

2018
PLoS One
PMCID: 5901919
PMID: 29659603
DOI: 10.1371/journal.pone.0194726
call_split See protocol

[…] alleles (APRIV) was estimated using GDA v.1.0 []. FSTAT v.1.2 [] was used to calculate allelic richness (AR), thus correcting for different sample sizes, and inbreeding coefficient (FIS). The package genepop v.1.2 [] was used to perform exact tests of Hardy–Weinberg equilibrium (HWE), and F-statistics estimated by Weir and Cockerhan []. Population genetic structure was evaluated using a Bayesian c […]


Want to access the full list of citations?
Genepop institution(s)
Institut des Sciences de l’Evolution (UM2-CNRS), Université Montpellier 2, Montpellier, France

Genepop reviews

star_border star_border star_border star_border star_border
star star star star star

Be the first to review Genepop