stdpopsim

Contents:

  • Introduction
  • Installation
  • Catalog
  • Tutorials
  • Command-line options
  • API
  • Development
  • Changelogs
stdpopsim
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Welcome to stdpopsim’s documentation!

Contents:

  • Introduction
    • First steps
    • Getting involved
    • Citations
    • Licence and usage
  • Installation
    • Requirements
    • Conda
    • Pip
    • Running the CLI
  • Catalog
    • Aedes aegypti
    • Anas platyrhynchos
    • Anolis carolinensis
    • Anopheles gambiae
    • Apis mellifera
    • Arabidopsis thaliana
    • Bos taurus
    • Caenorhabditis elegans
    • Canis familiaris
    • Chlamydomonas reinhardtii
    • Drosophila melanogaster
    • Drosophila sechellia
    • Escherichia coli
    • Gasterosteus aculeatus
    • Helianthus annuus
    • Heliconius melpomene
    • Homo sapiens
    • Pan troglodytes
    • Papio anubis
    • Pongo abelii
    • Streptococcus agalactiae
    • Generic models
  • Tutorials
    • Running stdpopsim with the command-line interface (CLI)
    • Running stdpopsim with the Python interface (API)
    • Example analyses with stdpopsim
  • Command-line options
    • Positional Arguments
    • Named Arguments
    • msprime specific parameters
    • SLiM specific parameters
    • Sub-commands:
  • API
    • Quick reference
    • Species definitions
    • Demographic Models
    • Gene conversion and bacterial recombination
    • Selection and DFEs
    • Generic models
    • Simulation Engines
  • Development
    • Installation
    • GitHub workflow
    • Adding a new species
    • Adding a new demographic model
    • Adding a genetic map
    • Lifting over a genetic map
    • Adding a DFE model
    • Coding standards
    • Naming conventions
    • Unit tests
    • Code Coverage
    • Documentation
    • Making a new release
  • Changelogs
    • [0.2.0] - 2022-11-01
    • [0.1.2] - 2020-05-29
    • [0.1.1] - 2020-01-02
    • [0.1.0] - 2019-12-18

Indices and tables

  • Index

  • Module Index

  • Search Page

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