Exercises in Genetic Linkage Analysis

Contents

• Notes on running these exercises (read this first)
• Setting up a simple two-point analysis using LINKAGE datafiles
• Explanation of mlink output
• Using utility programs to carry out a two-point analysis
• Carrying out multipoint linkage analysis
• Using the qdb database to manage pedigree data
• Adding an additional locus to the qdb database
• Using quiklink with an additional locus
• Carrying out analyses on diseases with complex inheritance
• Using mflink to carry out model-free analysis
• Analysing complex diseases using splink
• Using genehunter to carry out non-parametric linkage analysis
• Using clump to carry out case-control analysis
• Using etdt to carry out TDT analysis
• Using genecounting to carry out multimarker association analysis

Reference section

• How to use operating system commands
• How to run particular programs

Appendices

• Overview of file types used in exercises
• How to set up the exercises
• Conditions of use

All material copyright (C) Dave Curtis and Gili Koochaki 1996-2006