Introduction | Installation | Example Usage
Package: SMAHP 0.0.5
Weijia Fu
SMAHP: Survival Mediation Analysis of High-Dimensional Proteogenomic Data
SMAHP (pronounced as SOO-MAP) is a novel multi-omics framework for causal mediation analysis of high-dimensional proteogenomic data with survival outcomes. The full methodological details can be found in our recent preprint by Ahn S et al. (2025) <doi:10.48550/arXiv.2503.08606>.
Authors:
SMAHP_0.0.5.tar.gz
SMAHP_0.0.5.tar.gz(r-4.7-any)SMAHP_0.0.5.tar.gz(r-4.6-any)
SMAHP_0.0.5.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION
card.svg |card.png
SMAHP/json (API)
| # Install 'SMAHP' in R: |
| install.packages('SMAHP', repos = c('https://cran.r-universe.dev', 'https://cloud.r-project.org')) |
Datasets:
- example_dat - Example Dataset
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
Last updated from:92baeb3971. Checks:4 OK. Indexed: yes.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| linux-devel-x86_64 | OK | 229 | ||
| source / vignettes | OK | 253 | ||
| linux-release-x86_64 | OK | 253 | ||
| wasm-release | OK | 111 |
Exports:get_adjusted_pget_coefget_pairsget_raw_pget_sig_pathwaySIS_comboSMAHPStepOneStepThreeStepTwo
Dependencies:clicodetoolscpp11data.tablefarverfdrtoolforeachggplot2glmnetgluegtableirlbaisobanditeratorslabelinglatticelifecycleMatrixncvregpenAFTR6RColorBrewerRcppRcppArmadilloRcppEigenrlangS7scalesshapesurvivalvctrsviridisLitewithr
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Example Dataset | example_dat |
| A function that returns adjusted p-values | get_adjusted_p |
| A function that extracts coefficients. | get_coef |
| A function that returns mediation-exposure matrix | get_pairs |
| A function that returns unadjusted p-values | get_raw_p |
| A function that returns significant pathways. | get_sig_pathway |
| SIS combo | SIS_combo |
| Main function | SMAHP |
| Penalized mediation and outcome models | StepOne |
| Post-hoc model | StepThree |
| Select M-X pairs via SIS | StepTwo |