GSR: Simulator - SimSCSnTree

AttributeValue
Title SimSCSnTree
Short Description Single-cell DNA sequencing simulator for SNVs, CNAs, cell/subclone trees, and sequencing reads.
Long Description SimSCSnTree generates an evolutionary tree of cells/subclones, evolves SNVs and CNAs along branches, and samples sequencing reads from selected nodes for benchmarking single-cell genomic analysis tools, especially cancer genomics workflows.
Keywords single-cell DNA sequencing; cancer; SNV; CNA; copy number aberration; tree simulation; read simulation; Python; BioConda
Homepagehttps://github.com/compbiofan/SimSCSnTree
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 DataSequencing Reads,
VariationsSingle Nucleotide Variation,
Simulation Method
Input
Data Type
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

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