Merge Expression Sets by Row Names — merge

Merges two or three expression sets (matrices or data frames) by row names (gene symbols), removing duplicates. The function ensures common genes across all input expression sets are retained.

Usage

merge_eset(eset1, eset2, eset3 = NULL)

Arguments

eset1: First expression set (matrix or data frame with row names).
eset2: Second expression set (matrix or data frame with row names).
eset3: Optional third expression set. Default is `NULL`.

Value

Merged expression set (data frame) with duplicates removed. Row names correspond to gene symbols.

Author

Dongqiang Zeng

Examples

# Load example data
eset_stad <- load_data("eset_stad")

# Create mock expression sets with common genes
common_genes <- c("TP53", "BRCA1", "EGFR", "MYC")
eset1 <- matrix(rnorm(12),
  nrow = 4,
  dimnames = list(common_genes, paste0("S", 1:3))
)
eset2 <- matrix(rnorm(16),
  nrow = 4,
  dimnames = list(common_genes, paste0("S", 4:7))
)

# Merge two expression sets
merged_eset <- merge_eset(eset1, eset2)
#> ℹ Common genes between eset1 and eset2: 4
#> ℹ No duplicate gene symbols found.
#> ✔ Final merged expression set: 4 genes x 7 samples
print(dim(merged_eset))
#> [1] 4 7