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IBDsim specifications

Information


Unique identifier OMICS_15322
Name IBDsim
Software type Package/Module
Interface Command line interface, Graphical user interface
Restrictions to use None
Input format TXT
Operating system Unix/Linux, Mac OS, Windows
Programming languages C++
License CeCILL version 2.1
Computer skills Advanced
Version 2.0
Stability Stable
Source code URL http://www1.montpellier.inra.fr/CBGP/software/ibdsim/ressources/ibdsim/IBDSimV2.0_Sources.zip
Maintained Yes

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Documentation


Maintainer


  • person_outline Raphael Leblois <>

Publication for IBDsim

IBDsim citations

 (3)
library_books

Artificial barriers prevent genetic recovery of small isolated populations of a low mobility freshwater fish

2018
PMCID: 5943333
PMID: 29326479
DOI: 10.1038/s41437-017-0008-3

[…] blois et al. ), we ran simulations using a generation-by-generation coalescent algorithm that can simulate spatially limited dispersal (and resulting background genetic structure), implemented in ibdsim 2.0 (leblois et al. , ). consistent with our g. marmoratus data set for each stream, simulated data sets had 90 diploid individuals genotyped at 8 independent microsatellite loci. mutations […]

library_books

Estimating the human mutation rate from autozygous segments reveals population differences in human mutational processes

2017
PMCID: 5566399
PMID: 28827725
DOI: 10.1038/s41467-017-00323-y

[…] to restrict ourselves to analyzing regions that could only arise from a very small number of recent generations, up to and including those from third cousins. to examine this, we used the r-package ibdsim (see section on the predicted number of meioses from observed autozygous tract lengths) to simulate ibd sections in individuals separated by varying numbers of meioses. we then observed […]

library_books

Data Simulation in Machine Olfaction with the R Package Chemosensors

2014
PMCID: 3935855
PMID: 24586410
DOI: 10.1371/journal.pone.0088839

[…] for the distribution of data sets and software for data generation. published packages for data simulation include the fwsim package for functional magnetic resonance imaging , the packages ibdsim and hapsim in statistical genetics , and the simframe package for building a general-purpose framework for statistical simulations ., our manuscript is organized as follows. we begin […]


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IBDsim institution(s)
Muséum National d’Histoire Naturelle, UMR 5202 CNRS/MNHN ‘Origine, Structure et Evolution de la Biodiversité’, Paris, France; INRA, UMR CBGP (INRA/IRD/Cirad/Montpellier SupAgro), Campus International de Baillarguet, Montferrier-sur-Lez, France; Université Montpellier 2, CNRS, Institut des sciences de l’Évolution, Montpellier, France

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