GSR: Simulator - CASS
Attribute | Value |
---|---|
Title | CASS |
Short Description | Protein Sequence Simulation |
Long Description | CASS provides simulated protein (codon) sequences from a population genetic context with a protein structure-dependent explicit genotype-phenotype map. |
Version | 1.1 |
Project Started | 2011 |
Last Release | 10 years, 10 months ago |
Homepage | https://liberles.cst.temple.edu/Software/CASS/index.html |
Citations | Grahnen JA and Liberles DA, CASS: Protein sequence simulation with explicit genotype-phenotype mapping, Trends in Evolutionary Biology, Trends in Evolutionary Biology, 11-13-2012 |
GSR Certification | ✔ Accessibility |
Last evaluated | 03-08-2018 (2206 days ago) |
Attribute Category | Attribute |
---|---|
Target | |
Type of Simulated Data | Protein Sequence, |
Variations | |
Simulation Method | Forward-time, Phylogenetic, |
Input | |
Data Type | Ancestral Sequence, Other, |
File format | Other, |
Output | |
Data Type | Genotype or Sequence, |
Sequencing Reads | |
File Format | Fasta or Fastq, Other, |
Sample Type | |
Phenotype | |
Trait Type | |
Determinants | |
Evolutionary Features | |
Demographic | |
Population Size Changes | |
Gene Flow | |
Spatiality | |
Life Cycle | |
Mating System | |
Fecundity | |
Natural Selection | |
Determinant | Single-locus, Codon-based, Phenotypic Trait, |
Models | Directional Selection, Epistasis, |
Recombination | |
Mutation Models | Codon and Amino Acid Models, Heterogeneity among Sites, |
Events Allowed | |
Other | |
Interface | Command-line, |
Development | |
Tested Platforms | Linux and Unix, |
Language | C or C++, |
License | GNU Public License, |
GSR Certification | Accessibility, Documentation, Support, |
Number of Primary Citations: 1
Number of Non-Primary Citations: 1
The following 1 publications are selected examples of applications that used CASS.
2011
Grahnen JA, Nandakumar P, Kubelka J, Liberles DA, Biophysical and structural considerations for protein sequence evolution., BMC Evol Biol, 12-16-2011 [Abstract]