GSR: Simulator - Mendel's Accountant

Basic Package Attributes
AttributeValue
Title Mendel's Accountant
Short Description Mendel's Accountant (MENDEL) is an advanced numerical simulation program for modeling genetic change over time and was developed collaboratively by Sanford, Baumgardner, Brewer, Gibson and ReMine
Long Description MENDEL is a genetic accounting program that allows realistic numerical simulation of the mutation/selection process over time. MENDEL is applicable to either haploid or diploid organisms, having either sexual or clonal reproduction. Each mutation that enters the simulated population is tracked from generation to generation to the end of the experiment - or until that mutation is lost either as a result of selection or random drift. Using a standard personal computer, the MENDEL program can be used to generate and track millions of mutations within a single population. MENDEL's input variables include such things as mutation rate, distribution specifications for mutation effects, extent of dominance, mating characteristics, selection method, average fertility, heritability, non-scaling noise, linkage block properties, chromosome number, genome size, population size, population sub-structure, and number of generations. The MENDEL program outputs, both in tabular and graphic form, provide several types of data including: deleterious and beneficial mutation counts per individual, mean individual fitness as a function of generation count, distribution of mutation effects, and allele frequencies. MENDEL provides biologists with a new tool for research and teaching, and allows for the modeling of complex biological scenarios that would have previously been impossible.
Version 2.0
Project Started 2009
Last Release 8 years, 6 months ago
Homepagehttp://mendelsaccount.sourceforge.net/
Citations Sanford J, Baumgardner J, Brewer W, Gibson P, ReMine W, Mendel's Accountant: a biologically realistic forward-time population genetics program, Scalable Computing: Practice and Experience, 01-01-2007 [ Abstract ]
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Last evaluated02-06-2020 (253 days ago)
Detailed Attributes
Attribute CategoryAttribute
Target
Type of Simulated DataGenotype at Genetic Markers,
VariationsBiallelic Marker,
Simulation MethodForward-time,
Input
Data TypeAllele Frequencies,
File format
Output
Data TypeGenotype or Sequence, Phenotypic Trait, Mutation, Fitness (Selection threshold, linkage block fitness effects distribution),
Sequencing ReadsOther (Mutation accumulation count, population size, allele frequencies and percent fixation, distribution of accumulating mutational effects),
File Format
Sample TypeRandom or Independent,
Phenotype
Trait Type
Determinants
Evolutionary Features
Demographic
Population Size ChangesConstant Size, Exponential Growth or Decline, Bottleneck, Carrying Capacity, User Defined,
Gene FlowStepping Stone Models, Island Models, Sex or Age-Specific Migration Rates, Admixed Population,
Spatiality
Life Cycle
Mating SystemRandom Mating, Selfing,
FecundityConstant Number,
Natural Selection
Determinant
ModelsDirectional Selection, Multi-locus models, Epistasis, Random Fitness Effects (An exponential-type weibull distribution is used ),
RecombinationVarying Recombination Rates,
Mutation ModelsHeterogeneity among Sites,
Events Allowed
Other
InterfaceGraphical User Interface, Web-based,
Development
Tested PlatformsWindows, Mac OS X, Linux and Unix,
LanguageC or C++,
LicenseGNU Public License,
GSR CertificationAccessibility, Documentation,

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