GSR: Simulator - LDSO

Basic Package Attributes
AttributeValue
Title LDSO
Short Description Linkage Disequilibrium with Several Options
Long Description LDSO (Linkage Disequilibrium with Several Options) is a completely self-contained program written in Fortran90. It is a complete computer program for simulations of whole diploid population histories under various historical scenarios based on the gene-dropping method (MacCluer et al. 1986). The random number generator from L'Ecuyer (1996) was used. The genetic history of one or two populations can be simulated; the output files can deliver various statistics (inbreeding rates, allele frequencies, linkage disequilibrium) on these populations for generations wished by the user. Evolutionary forces that are classically found in livestock populations, such as mutation, selection, changes in the population size or random drift, can be taken into account. This allows the simulation of a wide-range of natural or experimental livestock populations, possibly by making use of a real pedigree. A set of parameters has to be provided by the user using simple text files. The possibility of genotyping errors and missing data is also envisaged.
Project Started 2011
Homepagehttps://qgsp.jouy.inra.fr/index.php?option=com_content&view=article&id=51&Itemid=56
Citations
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Detailed Attributes
Attribute CategoryAttribute
Target
Type of Simulated Data
Variations
Simulation Method
Input
Data Type
File format
Output
Data Type
Sequencing Reads
File Format
Sample Type
Phenotype
Trait Type
Determinants
Evolutionary Features
Demographic
Population Size Changes
Gene Flow
Spatiality
Life Cycle
Mating System
Fecundity
Natural Selection
Determinant
Models
Recombination
Mutation Models
Events Allowed
Other
Interface
Development
Tested Platforms
Language
License
GSR Certification

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