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SelSim specifications

Information


Unique identifier OMICS_07253
Name SelSim
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Windows
Computer skills Advanced
Version 2.1
Stability No
Maintained No

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Publication for SelSim

SelSim in publications

 (10)
PMCID: 3890628
PMID: 24387001
DOI: 10.1186/1471-2105-15-3

[…] block patterns delineated by recombination hotspots along chromosomes in fine-mapping locations of disease loci. over the past decade, a plethora of coalescent simulators have been developed, e.g. selsim [], coasim [], fastcoal [], mlcoalsim [], and recoal [], to name a few. of them, five most representative and widely used coalescent simulators, hudson’s ms [], mshot [], markovian coalescent […]

PMCID: 3737182
PMID: 23797107
DOI: 10.1534/g3.113.006197

[…] process. the multiplication of n˙ is needed in equation 18, since the rate of influx of new mutations is proportional to the population size of that generation., using the coalescent simulator selsim (), data are generated for two sets of parameters corresponding to medium and strong selection respectively: θ = 4nμ = 500, ρ = 4nr = 500, ns = 50, and θ = 4nμ = 500, ρ = 4nr = 500, ns = 500, […]

PMCID: 3364941
PMID: 22693434
DOI: 10.1371/journal.pcbi.1002495

[…] every mutation occurs at a different site in the sequence. however, two programs can be combined to quickly perform this task. first, we can simulate coalescent trees using the programs msms or selsim , although both tools are limited to simulation of a single locus under selection. then, nucleotide sequences can be evolved along those trees using seq-gen. another possibility is to apply […]

PMCID: 3164202
PMID: 21909391
DOI: 10.1371/journal.pone.0024410

[…] 7r-bearing chromosomes. however, selection intensity for the drd4 7r allele might be too low to be detected. we assessed the power of the lrh test and ihs test by using a computer simulation. using selsim program , 120 chromosomes bearing 101 snps evenly distributed in the region with the size of 1 centimorgan (cm) were simulated, where a derived allele at the 51th snp was assumed […]

PMCID: 5054161
PMID: 21382594
DOI: 10.1016/S1672-0229(10)60027-7

[…] het by comparing to the empirical distribution of genome. to test this hypothesis, we simulated datasets consisting of 1,000 genomic regions with varying strengths of selection using the program selsim. then, we selected a set of snps with an snp density comparable to that of illumina humanhap300, and calculated the averaged het for each 250-kb region. as expected, positive selections led […]


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SelSim institution(s)
Department of Statistics, Oxford, UK

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