DOI: 10.18129/B9.bioc.trio    

This is the development version of trio; for the stable release version, see trio.

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

Bioconductor version: Development (3.12)

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>

Citation (from within R, enter citation("trio")):


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


biocViews GeneticVariability, Genetics, Microarray, SNP, Software
Version 3.27.0
In Bioconductor since BioC 2.13 (R-3.0) (7 years)
License LGPL-2
Depends R (>= 3.0.1)
Imports grDevices, graphics, methods, stats, survival, utils, siggenes, LogicReg (>= 1.6.1)
Suggests haplo.stats, mcbiopi, splines, logicFS(>= 1.28.1), KernSmooth, VariantAnnotation
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