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Software for quantitative trait analysis.

Laura Almasy1, Diane M Warren

  • 1Department of Genetics, Southwest Foundation for Biomedical Research, San Antonio, TX 78245-0549, USA. almasy@darwin.sfbr.org

Human Genomics
|October 4, 2005
PubMed
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This paper reviews human quantitative trait genetic analysis software. It covers programs for linkage, association, and transmission disequilibrium tests, aiding researchers in selecting appropriate tools.

Area of Science:

  • Human genetics
  • Biostatistics
  • Computational biology

Background:

  • Genetic analysis of quantitative traits is crucial for understanding complex human diseases.
  • Numerous software programs exist, but a comprehensive overview is lacking.

Purpose of the Study:

  • To provide a comparative overview of available software for human quantitative trait genetic analysis.
  • To guide researchers in selecting appropriate tools for linkage and association studies.

Main Methods:

  • Review of software implementing variance components, Markov Chain Monte Carlo (MCMC), Haseman-Elston (H-E), and penetrance model-based linkage analyses.
  • Inclusion of programs for measured genotype association analyses and quantitative trait transmission disequilibrium tests.
  • Comparison of software including LINKAGE, FASTLINK, PAP, SOLAR, SEGPATH, ACT, Mx, MERLIN, GENEHUNTER, Loki, Mendel, SAGE, QTDT, and FBAT.

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Main Results:

  • Detailed descriptions of various genetic analysis software capabilities.
  • Information on software availability, supported platforms, and analysis types.
  • URLs provided for internet acquisition where possible.

Conclusions:

  • The paper serves as a valuable resource for researchers in human quantitative genetics.
  • Facilitates informed software selection for genetic linkage and association studies.
  • Aids in advancing the genetic analysis of complex human traits.