SFS_CODE

SFS_CODE simulates forward-time population genetic data to generate samples under complex demographic histories and models of natural selection.

Key Features:

• Flexibility in mutation models: Supports a range of mutation models including context-dependent mutations and insertions and deletions.
• Selection modeling: Implements various models of natural selection to represent selective pressures on loci.
• Locus annotation options: Allows annotation of loci as coding or non-coding, sex-linked or autosomal, and selected or neutral.
• Linkage structure customization: Enables definition of arbitrary linkage structures ranging from completely linked to independent to represent recombination patterns.

Scientific Applications:

• Complex demography and migration: Generate samples under complex demographic histories including migration and demographic changes.
• Selection and mutation studies: Model the interplay of selection regimes and diverse mutation processes, including indels and context-dependent mutations.
• Evolutionary biology and genomics: Simulate genomic regions that reflect realistic evolutionary scenarios for population-genetic and genomic analyses.

Methodology:

Performs forward-time simulation under a general Wright-Fisher model incorporating migration, demographic changes, selection pressures, and mutational events.