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Navigable Slide Index

1. Introduction
2. Background (1)
3. Background (2)
4. Example
5. Phase information
6. Methods for recovering phase information
7. Example: using pedigree information
8. Using population information
9. Approaches to inferring haplotypes
10. Computational methods: Clark's algorithm (1)
11. Computational methods: Clark's algorithm (2)
12. Computational methods: Clark's algorithm (3)
13. Other computational methods
14. Maximum likelihood (1)
15. Maximum likelihood (2)
16. Maximum likelihood: the EM algorithm
17. Bayesian approaches
18. General advantages of Bayesian methods
19. Conceptual issues in Bayesian methods
20. Markov chain Monte Carlo
21. PHASE
22. PHASE simulation studies
23. PHASE simulation studies: figure
24. Approximate coalescent prior
25. Approximate coalescent prior (Ctd)
26. Alternative Bayesian methods
27. Comparisons
28. Comparisons: table
29. Conclusions
30. Additional references, and web resources

Topics Covered

• The problem of haplotype phase prediction and inference of frequencies
• Computational methods: parsimony and Clark's algorithm
• Computational methods: maximum likelihood and the EM algorithm
• Computational methods: Bayesian approaches
• The advantages of a Coalescent-based prior
• Coping with large numbers of markers
• Review of available software

Links

Series:

• Genetic Epidemiology I

Categories:

• Genetics & Epigenetics
• Methods

Talk Citation

Publication History

• Published on September 1, 2004
• Archived on February 25, 2021

Financial Disclosures

• Prof. Peter Donnelly has not informed HSTalks of any commercial/financial relationship that it is appropriate to disclose.