Package: epiGWAS
Title: Robust Methods for Epistasis Detection
Version: 1.0.1
Authors@R: c(person("Lotfi", "Slim", email = "lotfi.slim@mines-paristech.fr", role = c("aut", "cre")),
person("Clément", "Chatelain", email = "clement.chatelain@sanofi.com", role = "ctb"),
person("Chloé-Agathe", "Azencott", email = "chloe-agathe.azencott@mines-paristech.fr", role ="ctb"),
person("Jean-Philippe", "Vert", email = "jpvert@google.com", role ="ctb"))
Description: Functions to perform robust epistasis detection in genome-wide
association studies, as described in Slim et al. (2018) <doi:10.1101/442749>.
The implemented methods identify pairwise interactions between a particular
target variant and the rest of the genotype, using a propensity score
approach. The propensity score models the linkage disequilibrium between the
target and the rest of the genotype. All methods are penalized regression
approaches, which differently incorporate the propensity score to only
recover the synergistic effects between the target and the genotype.
Depends: R (>= 3.4.0)
Imports: matrixStats, DescTools, glmnet, SNPknock
Suggests: foreach, iterators, precrec, parallel, doParallel, bigmemory,
biglasso, testthat, knitr, rmarkdown, kableExtra
License: GPL (>= 2)
Encoding: UTF-8
LazyData: true
RoxygenNote: 6.1.1
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2019-05-21 21:00:09 UTC; lotfislim
Author: Lotfi Slim [aut, cre],
Clément Chatelain [ctb],
Chloé-Agathe Azencott [ctb],
Jean-Philippe Vert [ctb]
Maintainer: Lotfi Slim <lotfi.slim@mines-paristech.fr>
Repository: CRAN
Date/Publication: 2019-05-21 21:20:04 UTC

Imports: matrixStats, DescTools, glmnet, SNPknock, parallel
Suggests: foreach, iterators, precrec, doParallel, bigmemory, biglasso,
Packaged: 2019-09-08 16:24:35 UTC; lotfislim

Package: epiR
Version: 0.9-10
Date: 2008-08-21
Title: Functions for analysing epidemiological data
Author: Mark Stevenson <M.Stevenson@massey.ac.nz> with contributions
from Telmo Nunes, Javier Sanchez, and Ron Thornton.
Maintainer: Mark Stevenson <M.Stevenson@massey.ac.nz>
Description: A package for analysing epidemiological data. Contains functions
for directly and indirectly adjusting measures of disease frequency,
quantifying measures of association on the basis of single or multiple
strata of count data presented in a contingency table, and computing
confidence intervals around incidence risk and incidence rate estimates.
Miscellaneous functions for use in meta-analysis, diagnostic test
interpretation, and sample size calculations.
Depends: R (>= 2.0.0)
License: GPL (>= 2)
URL: http://epicentre.massey.ac.nz
Packaged: Thu Aug 21 09:16:44 2008; Mark