build_classifier_central_genes: build classifiers for central genes

In mlist/SPONGE: Sparse Partial Correlations On Gene Expression

build classifiers for central genes

Description

build classifiers for central genes

Usage

build_classifier_central_genes(
  train_gene_expr,
  test_gene_expr,
  train_enrichment_modules,
  test_enrichment_modules,
  train_meta_data,
  test_meta_data,
  train_meta_data_type = "TCGA",
  test_meta_data_type = "TCGA",
  metric = "Exact_match",
  tunegrid_c = c(1:100),
  n.folds = 10,
  repetitions = 3
)

Arguments

train_gene_expr	expression data of train dataset, genenames must be in rownames
test_gene_expr	expression data of test dataset, genenames must be in rownames
train_enrichment_modules	return of enrichment_modules()
test_enrichment_modules	return of enrichment_modules()
train_meta_data	meta data of train dataset
test_meta_data	meta data of test dataset
train_meta_data_type	TCGA or METABRIC
test_meta_data_type	TCGA or METABRIC
metric	metric (Exact_match, Accuracy) (default: Exact_match)
tunegrid_c	defines the grid for the hyperparameter optimization during cross validation (caret package) (default: 1:100)
n.folds	number of folds to be calculated
repetitions	number of k-fold cv iterations (default: 3)

Value

model for central genes

mlist/SPONGE documentation built on Feb. 12, 2023, 1:22 a.m.