SSNscore_default: SSNscore_default

In Kaiyu-W/DNBr: Compute the Dynamic Network Biomarkers (DNB) model

SSNscore_default

Description

compute the aggregated SSN score for each group

Usage

SSNscore_default(
  object,
  K,
  freq = 0.5,
  meta = NULL,
  method = c("mean", "sum"),
  mean_by = c("K", "genes")
)

Arguments

object	S4::SSN
K	an integer, the top K genes by order of CI
freq	percentage for selection of each group's genes. That is, n_sample = freq * #repeats in one group, and n_gene = (in this group how many repeats enriched this gene). If n_gene >= n_sample, this gene is selected for this group
meta	group information for all samples (repeats), a data.frame with 1-col, or NULL (default). If NULL, object@[e-mail] should have any column and the first will be used
method	method for aggregating the gene expression to calculate the score of each sample, by average (mean, default) or summation (sum)
mean_by	if method == mean, where the total number is K (default) or the actual number of genes

Value

S4::SSN object, result will be stored in object@score

Kaiyu-W/DNBr documentation built on April 27, 2024, 10:09 a.m.