pyslim
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Contents:
Introduction
Installation
Troubleshooting
Tutorial
Vignette: A spatial simulation
Vignette: Following up with more coalescent simulation
Metadata
Legacy metadata
Python API
Development
pyslim
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Welcome to pyslim’s documentation!
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Welcome to pyslim’s documentation!
¶
Contents:
Introduction
Overview
What does SLiM record in the tree sequence?
Who and what is in the tree sequence?
What else can I find out from the tree sequence?
Installation
Troubleshooting
Tutorial
Recapitation
Simplification
Adding neutral mutations to a SLiM simulation
Extracting particular SLiM individuals
Reading SLiM metadata
Coalescent simulation for SLiM
Extracting information about selected mutations
Possibly important technical notes
Vignette: A spatial simulation
Simulation
Recapitation and mutation
Take a sample of individuals
Plotting locations
Isolation by distance
VCF output
More information
What about simplification?
Vignette: Following up with more coalescent simulation
Positive selection
Recapitation
Continuing the simulation
Metadata
Converting from SLiM time to tskit time
Modifying SLiM metadata
Technical details
Legacy metadata
Python API
Additions to the tree sequence
Constants
Metadata
Development
Quickstart
Indices and tables
¶
Index
Module Index
Search Page
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