DOI: 10.18129/B9.bioc.trio    

Testing of SNPs and SNP Interactions in Case-Parent Trio Studies

Bioconductor version: Release (3.6)

Testing SNPs and SNP interactions with a genotypic TDT. This package furthermore contains functions for computing pairwise values of LD measures and for identifying LD blocks, as well as functions for setting up matched case pseudo-control genotype data for case-parent trios in order to run trio logic regression, for imputing missing genotypes in trios, for simulating case-parent trios with disease risk dependent on SNP interaction, and for power and sample size calculation in trio data.

Author: Holger Schwender, Qing Li, Philipp Berger, Christoph Neumann, Margaret Taub, Ingo Ruczinski

Maintainer: Holger Schwender <holger.schw at>

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PDF R Script Trio Logic Regression and genotypic TDT
PDF   Reference Manual


biocViews GeneticVariability, Genetics, Microarray, SNP, Software
Version 3.16.0
In Bioconductor since BioC 2.13 (R-3.0) (4.5 years)
License LGPL-2
Depends R (>= 3.0.1)
Suggests survival, haplo.stats, mcbiopi, siggenes, splines, LogicReg (>= 1.5.3), logicFS(>= 1.28.1), KernSmooth, VariantAnnotation
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Imports Me
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