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 (3.20)
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 gmx.de>
citation("trio")
):
Installation
To install this package, start R (version "4.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("trio")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("trio")
Trio Logic Regression and genotypic TDT | R Script | |
Reference Manual |
Details
biocViews | GeneticVariability, Genetics, Microarray, SNP, Software |
Version | 3.43.0 |
In Bioconductor since | BioC 2.13 (R-3.0) (11 years) |
License | LGPL-2 |
Depends | R (>= 3.0.1) |
Imports | grDevices, graphics, methods, stats, survival, utils, siggenes, LogicReg (>= 1.6.1) |
System Requirements | |
URL |
See More
Suggests | haplo.stats, mcbiopi, splines, logicFS(>= 1.28.1), KernSmooth, VariantAnnotation |
Linking To | |
Enhances | |
Depends On Me | |
Imports Me | |
Suggests Me | |
Links To Me | |
Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
Source Package | trio_3.43.0.tar.gz |
Windows Binary | trio_3.43.0.zip |
macOS Binary (x86_64) | trio_3.43.0.tgz |
macOS Binary (arm64) | trio_3.43.0.tgz |
Source Repository | git clone https://git.bioconductor.org/packages/trio |
Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/trio |
Bioc Package Browser | https://code.bioconductor.org/browse/trio/ |
Package Short Url | https://bioconductor.org/packages/trio/ |
Package Downloads Report | Download Stats |