genepop’007: a complete re‐implementation of the genepop software for Windows and Linux

By François Rousset. Molecular Ecology Resources, 2008

8,902 citations recorded by the source corpus.

View Paper: https://www.semanticscholar.org/paper/46e3a229d170207f0732d6b4c4c490b59d31a498

How researchers see this paper

The researchers whose trusted networks rank it highest, strongest advocate first. Every researcher gets a different order.

In Genetics

Citations in the corpus

GenAlEx 6.5: genetic analysis in Excel. Population genetic software for teaching and research—an update (2012, background): “For example, direct export is offered to programs such as GENEPOP (Rousset, 2008) and STRUCTURE (Pritchard et al. , 2000), and via these same formats to many other programs, including genetic packages in R such as adegenet (Jombart, 2008) and pegas (Paradis, 2010).”
Population genetics of Australian white sharks reveals fine-scale spatial structure, transoceanic dispersal events and low effective population sizes (2012, background): “…loci data showing the number of sharks genotyped (n), the number of alleles (Na), the average observed (HO) and expected (HE) heterozygosity, genotyping success rate (%), and GenBank accession number Mar Ecol Prog Ser 455: 229–244, 2012 quilibrium by Genepop web Version 4.0 (Rousset 2008).”
Species and stock identification of prey consumed by endangered southern resident killer whales in their summer range (2010, methodology): “…sig- nificance of differences between mixture samples from different times or places was evaluated directly from the allele frequencies in the prey samples using a contingency test of homogeneity between samples, as implemented in the program GENEPOP 4.0 (Raymond & Rousset 1995a,b, Rousset 2008).”
Remarkably low genetic diversity and strong population structure in common bottlenose dolphins (Tursiops truncatus) from coastal waters of the Southwestern Atlantic Ocean (2014, methodology): “Departures from Hardy–Weinberg equilibrium and linkage disequilibrium were tested using the Fisher's exact test and a Markov chain method with 1,000 iterations in GENEPOP 4.2 (Rousset 2008).”
Grazing alters insect visitation networks and plant mating systems (2014, neutral): “Basic statistics and tests for presence of null alleles were conducted using Genepop 4.1.1 (Rousset 2008).”
Climate change induced hybridization in flying squirrels (2010, methodology): “We tested for deviations from Hardy–Weinberg equilibrium (HWE) with Bonferroni-corrected significance thresholds for each sample site, locus, and species using the ADEGENET package (Jombart, 2008) for R (R Development Core Team, 2008) and linkage equilibrium (LE) in GENEPOP 4 (Rousset, 2008).”
Single-Nucleotide Polymorphisms (SNPs) under Diversifying Selection Provide Increased Accuracy and Precision in Mixed-Stock Analyses of Sockeye Salmon from the Copper River, Alaska (2011, methodology): “For any location in which multiple collections were made and separated in time by more than one full generation, collections were tested for homogeneity at each locus by means of Pearson's traditional chi-square test using the program CHIFISH (Ryman 2006 ).”
Applications of landscape genetics in conservation biology: concepts and challenges (2010, methodology): “Two free software programs implement these approaches: GENEPOP (Rousset 2008) uses the ar metric or an alternative estimator (er) with better statistical properties (Watts et al. 2007), and SPAGeDi (Hardy and Vekemans 2002), which applies the ar metric or other estimators of kinship coefficients.”
Patterns of phenotypic plasticity and local adaptation in the wide elevation range of the alpine plant Arabis alpina (2018, methodology): “The software Genepop (Rousset, 2008) was used to infer the Weir & Cockerham (1984) FST and FIS es187 timates.”
Unified Framework to Evaluate Panmixia and Migration Direction Among Multiple Sampling Locations (2010, methodology): “…al. 1992b; Michalakis and Excoffier 1996; Rousset 1996; Neigel 2002; Weir and Hill 2002; Holsinger et al. 2002) use allele frequencies to calculate FST for pairs of locations or use Fisher’s exact test to reject panmixia for the whole or subsets of the data (Raymond and Rousset 1995; Rousset 2008).”
Blind to morphology: genetics identifies several widespread ecologically common species and few endemics among Indo‐Pacific cauliflower corals (Pocillopora, Scleractinia) (2013, methodology): “Hardy–Weinberg equilibrium in phylogenetic groups/lineages using genepop (Raymond & Rousset, 1995; Rousset, 2008).”
Genetic discontinuity among regional populations of Lophelia pertusa in the North Atlantic Ocean (2011, positive): “Exact tests for HWE were performed in Genepop v. 4 (Rousset 2008).”
Summer–Fall Distribution of Stocks of Immature Sockeye Salmon in the Bering Sea as Revealed by Single-Nucleotide Polymorphisms (2010, background): “0 [updated version of Raymond and Rousset 1995 ]; Rousset 2008 ).”
Linking movement behavior and fine-scale genetic structure to model landscape connectivity for bobcats (Lynx rufus) (2013, positive): “We used program GenePop 4.0 (Rousset 2008) to estimate number of alleles, observed and expected heterozygosities, and Weir and Cockerham’s (1984) FIS for each locus.”