LUCIDus: LUCID with Multiple Omics Data
Implements Latent Unknown Clusters By Integrating Multi-omics Data
(LUCID; Peng (2019) <doi:10.1093/bioinformatics/btz667>) for integrative
clustering with exposures, multi-omics data, and health outcomes.
Supports three integration strategies: early, parallel, and serial.
Provides model fitting and tuning, lasso-type regularization for exposure
and omics feature selection, handling of missing data, including both
sporadic and complete-case patterns, prediction, and g-computation for
estimating causal effects of exposures, bootstrap inference for
uncertainty estimation, and S3 summary and plot methods. For the
multi-omics integration framework, see Jia (2024)
<https://journal.r-project.org/articles/RJ-2024-012/RJ-2024-012.pdf>.
For the missing-data imputation mechanism, see Jia (2024)
<doi:10.1093/bioadv/vbae123>.
| Version: |
3.1.0 |
| Depends: |
R (≥ 3.6.0) |
| Imports: |
mclust, nnet, boot, jsonlite, networkD3, progress, stats, utils, glasso, glmnet |
| Suggests: |
testthat (≥ 3.0.0) |
| Published: |
2026-03-11 |
| DOI: |
10.32614/CRAN.package.LUCIDus |
| Author: |
Qiran Jia  [aut,
cre],
Yinqi Zhao [aut],
David Conti [ths],
Jesse Goodrich
[ctb] |
| Maintainer: |
Qiran Jia <qiranjia at usc.edu> |
| License: |
MIT + file LICENSE |
| URL: |
https://journal.r-project.org/articles/RJ-2024-012/RJ-2024-012.pdf,
https://doi.org/10.1093/bioadv/vbae123 |
| NeedsCompilation: |
no |
| In views: |
MissingData, Omics |
| CRAN checks: |
LUCIDus results |
Documentation:
Downloads:
Linking:
Please use the canonical form
https://CRAN.R-project.org/package=LUCIDus
to link to this page.