Fits penalized linear mixed models that correct for
unobserved confounding factors. 'plmmr' infers and corrects for the
presence of unobserved confounding effects such as population
stratification and environmental heterogeneity. It then fits a linear
model via penalized maximum likelihood. Originally designed for the
multivariate analysis of single nucleotide polymorphisms (SNPs)
measured in a genome-wide association study (GWAS), 'plmmr' eliminates
the need for subpopulation-specific analyses and post-analysis p-value
adjustments. Functions for the appropriate processing of 'PLINK'
files are also supplied. For examples, see the package homepage.
<https://pbreheny.github.io/plmmr/>.
| Version: |
4.2.1 |
| Depends: |
bigalgebra, bigmemory, R (≥ 4.4.0) |
| Imports: |
biglasso (≥ 1.6.0), data.table, glmnet, Matrix, ncvreg, parallel, utils |
| LinkingTo: |
BH, bigmemory, Rcpp, RcppArmadillo (≥ 0.8.600) |
| Suggests: |
bigsnpr, bigstatsr, graphics, grDevices, knitr, MASS, rmarkdown, tinytest |
| Published: |
2025-03-03 |
| DOI: |
10.32614/CRAN.package.plmmr |
| Author: |
Tabitha K. Peter 
[aut],
Anna C. Reisetter
[aut],
Patrick J. Breheny
[aut, cre],
Yujing Lu [aut] |
| Maintainer: |
Patrick J. Breheny <patrick-breheny at uiowa.edu> |
| License: |
GPL-3 |
| URL: |
https://pbreheny.github.io/plmmr/,
https://github.com/pbreheny/plmmr/ |
| NeedsCompilation: |
yes |
| Citation: |
plmmr citation info |
| Materials: |
README, NEWS |
| CRAN checks: |
plmmr results |