select_method: Select a Signature Scoring Method Subset

In IOBR: Immune Oncology Biological Research

Select a Signature Scoring Method Subset

Description

Filters an integrated signature score matrix to retain results from a specified method (PCA, ssGSEA, or zscore) and strips method suffixes from column names.

Usage

select_method(data, method = c("ssGSEA", "PCA", "zscore"))

Arguments

data	Data frame or matrix. Integrated signature score matrix.
method	Character. One of "PCA", "ssGSEA", or "zscore" (case-insensitive). Default is "ssGSEA".

Value

Matrix or data frame containing only the selected method's scores.

Author(s)

Dongqiang Zeng

Examples

# Simulate data with multiple method columns
set.seed(123)
sim_res <- data.frame(
  ID = paste0("Sample", 1:10),
  Sig1_PCA = rnorm(10),
  Sig1_ssGSEA = rnorm(10),
  Sig1_zscore = rnorm(10),
  Sig2_PCA = rnorm(10),
  Sig2_ssGSEA = rnorm(10),
  Sig2_zscore = rnorm(10)
)
# Select PCA method columns only
pca_res <- select_method(sim_res, method = "PCA")
print(colnames(pca_res))

IOBR documentation built on May 30, 2026, 5:07 p.m.