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BMC Bioinformatics. 2008 Feb 28;9:130. doi: 10.1186/1471-2105-9-130.

Catmap: case-control and TDT meta-analysis package.

Author information

  • Genes, Cognition and Psychosis Program, Clinical Brain Disorders Branch, National Institute of Mental Health, National Institutes of Health, Bethesda, Maryland, USA. kristin.nicodemus@well.ox.ac.uk

Abstract

BACKGROUND:

Risk for complex disease is thought to be controlled by multiple genetic risk factors, each with small individual effects. Meta-analyses of several independent studies may be helpful to increase the ability to detect association when effect sizes are modest. Although many software options are available for meta-analysis of genetic case-control data, no currently available software implements the method described by Kazeem and Farrall (2005), which combines data from independent family-based and case-control studies.

RESULTS:

I introduce the package catmap for the R statistical computing environment that implements fixed- and random-effects pooled estimates for case-control and transmission disequilibrium methods, allowing for the use of genetic association data across study types. In addition, catmap may be used to create forest and funnel plots and to perform sensitivity analysis and cumulative meta-analysis. catmap is available from the Comprehensive R Archive Network http://www.r-project.org.

CONCLUSION:

catmap allows researchers to synthesize data to assess evidence for association in studies of genetic polymorphisms, facilitating the use of pooled data analyses which may increase power to detect moderate genetic associations.

PMID:
18307795
[PubMed - indexed for MEDLINE]
PMCID:
PMC2291045
Free PMC Article

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