sponge_subsampling: Sponge subsampling

In biomedbigdata/SPONGE: Sparse Partial Correlations On Gene Expression

Sponge subsampling

Description

Sponge subsampling

Usage

sponge_subsampling(
  subsample.n = 100,
  subsample.repeats = 10,
  subsample.with.replacement = FALSE,
  subsample.plot = FALSE,
  gene_expr,
  mir_expr,
  ...
)

Arguments

subsample.n	the number of samples to be drawn in each round
subsample.repeats	how often should the subsampling be done?
subsample.with.replacement	logical, should we allow samples to be used repeatedly
subsample.plot	logical, should the results be plotted as box plots
gene_expr	A gene expression matrix with samples in rows and featurs in columns. Alternatively an object of class ExpressionSet.
mir_expr	A miRNA expression matrix with samples in rows and features in columns. Alternatively an object of class ExpressionSet.
...	parameters passed on to the sponge function

Value

a summary of the results with mean and standard deviations of the correlation and sensitive correlation.

References

sponge

Examples

sponge_subsampling(gene_expr = gene_expr,
mir_expr = mir_expr, mir_interactions = mir_interactions,
subsample.n = 10, subsample.repeats = 1)

biomedbigdata/SPONGE documentation built on Feb. 6, 2023, 10:19 p.m.