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Introduction
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Documentation for TreeLD, version
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Documentation for TreeLD, version
Index
Contents
Introduction
Overview
Philosophy
Overview of the algorithm
Technical capabilities and limitations
Installation instructions
Windows version
Linux version
The interface
Input format
Genetic map distances
Missing information and unknown phase
TDT-data
Running TreeLD
Create a project
Generating trees
Analysis of the trees with the peeling algorithm
Generating the posterior distribution
Testing for the presence of a disease mutation
Generating additional trees
Additional options
Visual analysis of trees
Creating tree building scripts
Generating tree peeling scripts
Exporting images
Choosing parameters for the Markov Chain Monte Carlo
Choosing burn-in
Effect of outliers among the sampled trees
Density of focal points
Strategy
How to cite this program
Bibliography
Index
Sebastian Zoellner 2005-01-27