Generate synthetic GeneWalk data with controlled signal structure
rs_build_synthetic_genewalk.RdGenerate synthetic GeneWalk data with controlled signal structure
Usage
rs_build_synthetic_genewalk(
n_signal_genes,
n_noise_genes,
n_roots,
depth,
branching,
p_lateral,
p_ppi,
min_annotations,
max_annotations,
min_noise_subtrees,
seed
)Arguments
- n_signal_genes
Integer. Genes annotated to a single ontology subtree.
- n_noise_genes
Integer. Genes with annotations scattered across subtrees.
- n_roots
Integer. Number of ontology root terms.
- depth
Integer. Depth of each ontology subtree.
- branching
Integer. Average branching factor per node.
- p_lateral
Numeric. Probability of lateral edges within each ontology level.
- p_ppi
Numeric. PPI connection probability within gene groups.
- min_annotations
Integer. Minimum annotations per gene.
- max_annotations
Integer. Maximum annotations per gene.
- min_noise_subtrees
Integer. Minimum number of different subtrees each noise gene must span.
- seed
Integer. Random seed.