GSR: Simulator - Rose

Basic Package Attributes
AttributeValue
Title Rose
Short Description Random model of sequence evolution
Long Description Rose implements a new probabilistic model of the evolution of RNA-, DNA-, or protein-like sequences. Guided by an evolutionary tree, a family of related sequences is created from a common ancestor sequence by insertion, deletion and substitution of characters. During this artificial evolutionary process, the `true' history is logged and the `correct' multiple sequence alignment is created simultaneously. The model also allows for varying rates of mutation within the sequences, making it possible to establish so-called sequence motifs. The data created by Rose are suitable for the evaluation of methods in multiple sequence alignment computation and the prediction of phylogenetic relationships. It can also be useful when teaching courses in or developing models of sequence evolution and in the study of evolutionary processes.
Version 1.3
Project Started 1998
Last Release 22 years, 7 months ago
Homepagehttp://bibiserv.techfak.uni-bielefeld.de/rose/
Citations Stoye J, Evers D, Meyer F, Rose: generating sequence families., Bioinformatics, 01-01-1998 [ Abstract, cited in PMC ]
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Author verificationThe 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.
Detailed Attributes
Attribute CategoryAttribute
Target
Type of Simulated DataHaploid DNA Sequence, RNA, Protein Sequence,
VariationsInsertion and Deletion,
Simulation MethodPhylogenetic,
Input
Data Type
File formatProgram Specific,
Output
Data TypeGenotype or Sequence,
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 ModelsMarkov DNA Evolution Models, Indels and Others,
Events Allowed
Other
Interface
Development
Tested PlatformsLinux and Unix, Solaris,
LanguageC or C++,
License
GSR CertificationAccessibility,

No example publication using Rose has been provided.

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