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GSR: Simulator - MimicrEE2
| Attribute | Value |
|---|---|
| Title | MimicrEE2 |
| Short Description | MimicrEE2: Genome-wide forward simulations of Evolve and Resequencing studies |
| Long Description | MimicrEE2 is a multi-threaded Java program for genome-wide forward simulations of evolving populations. MimicrEE2 enables the convenient usage of available genomic resources, supports biological particulars of model organism frequently used in E&R studies and offers a wide range of different adaptive models (selective sweeps, polygenic adaptation, epistasis). Due to its user-friendly and efficient design MimicrEE2 will facilitate simulations of E&R studies even for small labs with limited bioinformatics expertise or computational resources. Additionally, the scripts provided for executing MimicrEE2 on a computer cluster permit the coverage even of a large parameter space. MimicrEE2 runs on any computer with Java installed. |
| Keywords | Evolve and Resequencing, genome-wide forward simulation, adaptive models |
| Version | 0.20.8 |
| Project Started | 2018 |
| Last Release | 6 years, 7 months ago |
| Homepage | https://sourceforge.net/projects/mimicree2/ |
| Citations | Vlachos C, Kofler R, MimicrEE2: Genome-wide forward simulations of Evolve and Resequencing studies., PLoS Comput Biol, Aug. 16, 2018 [ Abstract, cited in PMC ] |
| GSR Certification |  ✔ Accessibility |
| Last evaluated | Dec. 9, 2022 (986 days ago) |
| Author verification | The basic description provided was derived from a website or publications by the GSR team and has not yet been verified by the simulation author. To modify this entry or add more information, propose changes to this simulator. |
| Attribute Category | Attribute |
|---|---|
| Target | |
| Type of Simulated Data | Diploid DNA Sequence, |
| Variations | Single Nucleotide Variation, |
| Simulation Method | Forward-time, |
| Input | |
| Data Type | Reference genome, |
| File format | |
| Output | |
| Data Type | Genotype or Sequence, Phenotypic Trait, |
| 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 | Multi-locus models, Epistasis, Disruptive, |
| Recombination | |
| Mutation Models | |
| Events Allowed | |
| Other | Polygenic background, |
| Interface | Command-line, |
| Development | |
| Tested Platforms | |
| Language | Java, |
| License | GNU Public License, |
| GSR Certification | Accessibility, Documentation, Application, Support, |
Number of Primary Citations: 1
Number of Non-Primary Citations: 3
The following 3 publications are selected examples of applications that used MimicrEE2.
2022
Burny C, Nolte V, Dolezal M, Schlötterer C, Genome-wide selection signatures reveal widespread synergistic effects of two different stressors in Drosophila melanogaster., Proc Biol Sci, Oct. 26, 2022 [Abstract]
2021
Otte KA, Nolte V, Mallard F, Schlötterer C, The genetic architecture of temperature adaptation is shaped by population ancestry and not by selection regime., Genome Biol, July 16, 2021 [Abstract]
Burny C, Nolte V, Dolezal M, Schlötterer C, Highly Parallel Genomic Selection Response in Replicated Drosophila melanogaster Populations with Reduced Genetic Variation., Genome Biol Evol, Nov. 5, 2021 [Abstract]