Package: twoPhaseGAS 1.08

Osvaldo Espin-Garcia

twoPhaseGAS: Two-Phase Genetic Association Study design and analysis with missing covariates by design

Provides functionality for selecting and analyzing individuals in two-phase genetic association studies. Phase 1 data usually come from GWAS results and we assume phase 2 genetic data will be part of a targeted genome sequencing / fine-mapping study. The package assists in selecting a subset of individuals that will be sequenced for phase 2. Once phase 2 data have been collected, the package implements methods to analyze phase 1 and 2 data together using semi-parametric regression models.

Authors:Osvaldo Espin-Garcia <[email protected]>, Apostolos Dimitromanolakis <[email protected]>, Shelley Bull <[email protected]>

twoPhaseGAS_1.08.tar.gz
twoPhaseGAS_1.08.zip(r-4.7)twoPhaseGAS_1.08.zip(r-4.6)twoPhaseGAS_1.08.zip(r-4.5)
twoPhaseGAS_1.08.tgz(r-4.6-any)twoPhaseGAS_1.08.tgz(r-4.5-any)
twoPhaseGAS_1.08.tar.gz(r-4.7-any)twoPhaseGAS_1.08.tar.gz(r-4.6-any)
twoPhaseGAS_1.08.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
twoPhaseGAS/json (API)

# Install 'twoPhaseGAS' in R:
install.packages('twoPhaseGAS', repos = c('https://egosv.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/egosv/twophasegas/issues

On CRAN:

Conda:

2.70 score 5 scripts 7 exports 7 dependencies

Last updated from:ef0e7b971a. Checks:7 NOTE, 2 OK. Indexed: yes.

TargetResultTimeFilesSyslog
linux-devel-x86_64NOTE159
source / vignettesOK173
linux-release-x86_64NOTE148
macos-release-arm64NOTE170
macos-oldrel-arm64NOTE157
windows-develNOTE98
windows-releaseNOTE90
windows-oldrelNOTE109
wasm-releaseOK112

Exports:DataGeneration_TPDoptimTP.GAoptimTP.LMtwoPhasetwoPhaseDesigntwoPhaseHeuristictwoPhaseSPML

Dependencies:data.tabledfoptimenrichwithlatticeMASSMatrixnloptr