GSR: Simulator - SoMaCX

AttributeValue
TitleSoMaCX
Short DescriptionPython framework for complex generative somatic genome modeling.
Long DescriptionSoMaCX models germline conservation, somatic tissue composition, clonal tumor evolution, structural variation, SNVs, and sequencing-read generation for complex cancer/somatic genome simulation workflows.
Keywordssomatic genome; cancer genomics; structural variation; SNV; clonal evolution; generative model; Python
Version0.1.3
Homepagehttps://github.com/timothyjamesbecker/somacx
Citations
GSR Certification This simulator has not yet been evaluated for GSR Certification. Learn more about or request GSR Certification.
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.
Attribute CategoryAttribute
Target
Type of Simulated DataHaploid DNA Sequence, Sequencing Reads,
VariationsSingle Nucleotide Variation, Insertion and Deletion,
Simulation Method
Input
Data TypeReference genome,
File format
Output
Data TypeGenotype or Sequence,
Sequencing Reads
File FormatFasta or Fastq,
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
InterfaceCommand-line, Script-based,
Development
Tested PlatformsLinux and Unix,
LanguagePython,
License
GSR Certification

Number of Primary Citations: 0

Number of Non-Primary Citations: 0

No example publication using SoMaCX has been provided.

Please propose new citations if you are aware of publications that use this software.


Propose changes to this simulator