Package: lit 1.0.1

lit: Latent Interaction Testing for Genome-Wide Studies

Identifying latent genetic interactions in genome-wide association studies using the Latent Interaction Testing (LIT) framework. LIT is a flexible kernel-based approach that leverages information across multiple traits to detect latent genetic interactions without specifying or observing the interacting variable (e.g., environment). LIT accepts standard PLINK files as inputs to analyze large genome-wide association studies.

Authors:Andrew Bass [aut, cre], Michael Epstein [aut]

lit_1.0.1.tar.gz
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lit_1.0.1.tar.gz(r-4.7-arm64)lit_1.0.1.tar.gz(r-4.7-x86_64)lit_1.0.1.tar.gz(r-4.6-arm64)lit_1.0.1.tar.gz(r-4.6-x86_64)
lit_1.0.1.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
lit/json (API)

# Install 'lit' in R:

install.packages('lit', repos = c('https://ajbass.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/ajbass/lit/issues

Uses libs:

openblas– Optimized BLAS
c++– GNU Standard C++ Library v3
openmp– GCC OpenMP (GOMP) support library

On CRAN:

openblas cpp openmp

4.18 score 2 stars 15 scripts 156 downloads 5 exports 31 dependencies

Last updated from:451458885c. Checks:11 NOTE, 2 OK. Indexed: yes.

Target	Result	Time
linux-devel-arm64	NOTE	167
linux-devel-x86_64	NOTE	169
source / vignettes	OK	260
linux-release-arm64	NOTE	189
linux-release-x86_64	NOTE	153
macos-release-arm64	NOTE	155
macos-release-x86_64	NOTE	358
macos-oldrel-arm64	NOTE	186
macos-oldrel-x86_64	NOTE	352
windows-devel	NOTE	173
windows-release	NOTE	183
windows-oldrel	NOTE	215
wasm-release	OK	146

Exports:gamut_plink lit lit_plink marginal marginal_plink

Dependencies:bit bit64 cli clipr CompQuadForm cpp11 crayon dplyr generics genio glue hms lifecycle magrittr pillar pkgconfig prettyunits progress R6 Rcpp RcppArmadillo RcppEigen readr rlang tibble tidyselect tzdb utf8 vctrs vroom withr

lit Package Vignette

Overview | Installation | Quick start

Rendered fromlit.Rmdusingknitr::rmarkdown

Last update: 2023-08-12
Started: 2023-08-11

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
GAMuT	gamut_plink
Latent Interaction Testing	lit
LIT correcting for dominance effects	lit_h
Latent Interaction Testing	lit_plink
Marginal (SQ/CP) approach	marginal
Marginal (SQ/CP) approach	marginal_plink