Package: MasterBayes
Title: ML and MCMC Methods for Pedigree Reconstruction and Analysis
Version: 2.52
Depends: coda, genetics, gtools, kinship2
Date: 2014-12-03
Author: Jarrod Hadfield
Maintainer: Jarrod Hadfield <j.hadfield@ed.ac.uk>
Description: The primary aim of MasterBayes is to use MCMC techniques to integrate over uncertainty in pedigree configurations estimated from molecular markers and phenotypic data. Emphasis is put on the marginal distribution of parameters that relate the phenotypic data to the pedigree. All simulation is done in compiled C++ for efficiency.
License: GPL (>= 2)
Packaged: 2014-12-03 17:54:52 UTC; jhadfiel
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2014-12-04 00:43:23
Package: FamEvent
Type: Package
Title: Simulation of Time-to-Event Family Data and Penetrance
Estimation
Version: 1.1
Date: 2016-03-09
Author: Yun-Hee Choi, Karen Kopciuk, Wenqing He, Laurent Briollais
Maintainer: Yun-Hee Choi <yun-hee.choi@schulich.uwo.ca>
Description: Generates time-to-event family data associated with mutated genes arising from various family study designs such as population-based, clinic- based, or multi-stage designs and provides functions to fit family data accounting for the study design and estimate age-dependent penetrance functions. It also provides carrier probabilities for those with missing genotypes and penetrance estimations are based on an Expectation-Maximization algorithm when genotypes are missing.
License: GPL (>= 2.0)
NeedsCompilation: no
Depends: R (>= 3.0.0), base, MASS, truncnorm, survival, kinship2
Repository: CRAN
Packaged: 2016-03-09 11:33:37 UTC; yunheechoi
Date/Publication: 2016-03-09 15:20:48
Package: LCAextend
Type: Package
Title: Latent Class Analysis (LCA) with familial dependence in extended
pedigrees
Version: 1.2
Date: 2012-03-15
Author: Arafat TAYEB <arafat.tayeb@ircm.qc.ca>, Alexandre BUREAU
<alexandre.bureau@msp.ulaval.ca> and Aurelie Labbe
<aurelie.labbe@mcgill.ca>
Maintainer: Alexandre BUREAU <alexandre.bureau@msp.ulaval.ca>
Depends: boot, mvtnorm, rms, kinship2
Description: This package performs a Latent Class Analysis of
phenotypic measurements in pedigrees and a model selection
based on one of two methods: likelihood-based cross-validation
and Bayesian Information Criterion. It computes also individual
and triplet child-parents weights in a pedigree using an
upward-downward algorithm. It takes into account the familial
dependence defined by the pedigree structure by considering
that a class of a child depends on his parents classes via
triplet-transition probabilities of the classes. The package
handles the case where measurements are available on all
subjects and the case where measurements are available only on
symptomatic (i.e. affected) subjects. Distributions for
discrete (or ordinal) and continuous data are currently
implemented. The package can deal with missing data.
License: GPL
LazyLoad: yes
URL: http://www.r-project.org
http://www.crulrg.ulaval.ca/pages_perso_chercheurs/bureau_a/
Packaged: 2012-03-17 22:13:00 UTC; bura0001
Repository: CRAN
Date/Publication: 2012-03-18 16:07:12
Package: paramlink
Type: Package
Title: Parametric Linkage Analysis in R
Version: 0.9-8
Date: 2016-04-07
Author: Magnus Dehli Vigeland
Maintainer: Magnus Dehli Vigeland <magnusdv@studmed.uio.no>
Description: Parametric linkage analysis and other likelihood-based pedigree analyses based on the Elston-Stewart algorithm, including singlepoint LOD scores, power analysis and computation of marker genotype distributions. Multipoint analysis is provided through a convenient MERLIN wrapper. Includes many utility functions for creating, manipulating and plotting pedigrees, markers and linkage results.
Depends: R (>= 3.2), kinship2
Imports: graphics, maxLik, stats, utils
SystemRequirements: For the MERLIN wrapper, MERLIN
(www.sph.umich.edu/csg/abecasis/merlin) must be installed and
pointed to in the PATH environment variable.
License: GPL (>= 2)
LazyData: Yes
NeedsCompilation: no
Packaged: 2016-04-27 21:15:18 UTC; magnusdv
Repository: CRAN
Date/Publication: 2016-04-28 00:28:23
Package: pedantics
Type: Package
Title: Functions to facilitate power and sensitivity analyses for
genetic studies of natural populations
Version: 1.5
Date: 2014-01-23
Depends: R (>= 2.4.0), MasterBayes, MCMCglmm, kinship2, grid
Author: Michael Morrissey
Maintainer: Michael Morrissey <michael.morrissey@st-andrews.ac.uk>
Description: Contains functions for sensitivity and power analysis, for calculating statistics describing pedigrees from wild populations, and for viewing pedigrees
License: GPL-2 | GPL-3
LazyLoad: yes
Packaged: 2014-01-23 11:20:39 UTC; michael
Repository: CRAN
Date/Publication: 2014-01-23 12:49:51
NeedsCompilation: yes
providing 
.