RunMixedLM: Run per-gene linear mixed models using glmmLasso

In yanwu2014/perturbLM: A lightweight R package that uses linear models to analyze the effects of chemical/genetic perturbations, conditions, and disease states on single gene expression.

Run per-gene linear mixed models using glmmLasso

Description

Run per-gene linear mixed models using glmmLasso

Usage

RunMixedLM(
  model_df,
  Y,
  fixed_form,
  rand_form,
  lambda = 0,
  fam = gaussian(),
  n_cores = 8,
  batch.size = 20,
  verbose = F
)

Arguments

model_df	Dataframe containing covariates used in the model formulas
Y	Gene expression matrix
fixed_form	Model formula for fixed effects
rand_form	Model formula for random effects
lambda	Lasso regularization parameter (default: 0)
fam	Distribution that describes gene expression (default: gaussian())
n_cores	Number of cores to use for parallel processing (default: 8)
verbose	Print error statements (default: False)

Value

List of fitted linear mixed model objects (one per gene)

yanwu2014/perturbLM documentation built on Aug. 24, 2023, 2:28 p.m.