Package: sparseSEM 4.1

Anhui Huang

sparseSEM: Elastic Net Penalized Maximum Likelihood for Structural Equation Models with Network GPT Framework

Provides elastic net penalized maximum likelihood estimator for structural equation models (SEM). The package implements `lasso` and `elastic net` (l1/l2) penalized SEM and estimates the model parameters with an efficient block coordinate ascent algorithm that maximizes the penalized likelihood of the SEM. Hyperparameters are inferred from cross-validation (CV). A Stability Selection (STS) function is also available to provide accurate causal effect selection. The software achieves high accuracy performance through a `Network Generative Pre-trained Transformer` (Network GPT) Framework with two steps: 1) pre-trains the model to generate a complete (fully connected) graph; and 2) uses the complete graph as the initial state to fit the `elastic net` penalized SEM.

Authors:Anhui Huang [aut, ctb, cre]

sparseSEM_4.1.tar.gz
sparseSEM_4.1.tar.gz(r-4.5-noble)sparseSEM_4.1.tar.gz(r-4.4-noble)
sparseSEM_4.1.tgz(r-4.4-emscripten)sparseSEM_4.1.tgz(r-4.3-emscripten)
sparseSEM.pdf |sparseSEM.html
sparseSEM/json (API)

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

Peer review:

Uses libs:
  • openblas– Optimized BLAS
Datasets:
  • B - True network edges
  • Missing - Missing Network Node dependent variable data
  • X - Genotype matrix
  • X - Genotype matrix
  • Y - Gene expression matrix
  • Y - Gene expression matrix

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

openblas

3.30 score 20 scripts 557 downloads 7 exports 0 dependencies

Last updated 2 months agofrom:d46e74d47a. Checks:OK: 1 WARNING: 1. Indexed: yes.

TargetResultDate
Doc / VignettesOKNov 27 2024
R-4.5-linux-x86_64WARNINGNov 27 2024

Exports:elasticNetSEMelasticNetSEMcvelasticNetSEMpointenSEM_stability_selectionenSEM_stability_selection_parallelenSEM_STSlassoSEM

Dependencies:

Elastic Net Enabled Sparse-Aware Maximum Likelihood for Structural Equation Models in Inferring Gene Regulatory Networks

Rendered fromsparseSEM.Rmdusingknitr::rmarkdownon Nov 27 2024.

Last update: 2023-08-09
Started: 2023-04-21

Elastic Net Penalized Structural Equation Models

Rendered fromNetwork-Inference-via-sparseSEM.Rmdusingknitr::rmarkdownon Nov 27 2024.

Last update: 2023-08-09
Started: 2023-06-11