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Comparison of Requirements and Capabilities of Major Multipurpose Software Packages

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Statistical Human Genetics

Part of the book series: Methods in Molecular Biology ((MIMB,volume 850))

Abstract

The aim of this chapter is to introduce the reader to commonly used software packages and illustrate their input requirements, analysis options, strengths, and limitations. We focus on packages that perform more than one function and include a program for quality control, linkage, and association analyses. Additional inclusion criteria were (1) programs that are free to academic users and (2) currently supported, maintained, and developed. Using those criteria, we chose to review three programs: Statistical Analysis for Genetic Epidemiology (S.A.G.E.), PLINK, and Merlin. We will describe the required input format and analysis options. We will not go into detail about every possible program in the packages, but we will give an overview of the packages requirements and capabilities.

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Author information

Authors and Affiliations

  1. Department of Epidemiology and Biostatistics, Case Western Reserve University, Cleveland, OH, USA

    Robert P. Igo Jr. & Audrey H. Schnell

Authors
  1. Robert P. Igo Jr.
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  2. Audrey H. Schnell
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Corresponding author

Correspondence to Robert P. Igo Jr. .

Editor information

Editors and Affiliations

  1. School of Medicine, Dept. Epidemiology & Biostatistics, Case Western Reserve University, Cornell Road 2103, Cleveland, 44106, Ohio, USA

    Robert C. Elston

  2. Dept. Epidemiology & Biostatistics, Memorial Sloan-Kettering Cancer Center, East 63rd Street 307, New York, 10021, New York, USA

    Jaya M. Satagopan

  3. School of Medicine, Dept. Epidemiology & Biostatistics, Case Western Reserve University, Cornell Road 2103, Cleveland, 44106, Ohio, USA

    Shuying Sun

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Igo, R.P., Schnell, A.H. (2012). Comparison of Requirements and Capabilities of Major Multipurpose Software Packages. In: Elston, R., Satagopan, J., Sun, S. (eds) Statistical Human Genetics. Methods in Molecular Biology, vol 850. Humana Press. https://doi.org/10.1007/978-1-61779-555-8_30

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  • DOI: https://doi.org/10.1007/978-1-61779-555-8_30

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  • Publisher Name: Humana Press

  • Print ISBN: 978-1-61779-554-1

  • Online ISBN: 978-1-61779-555-8

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