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Transform Signature Data into List Format

Source: R/format_signatures.R
format_signatures.Rd

Converts signature data from a data frame (with signatures as columns and genes as rows) into a list format suitable for IOBR functions. Handles NA values appropriately.

Usage

format_signatures(sig_data, save_signature = FALSE, output_name = "signatures")

Arguments

sig_data

Data frame with signature names as columns and genes in rows. Use `NA` for missing values.

save_signature

Logical. Whether to save the signature list as RData. Default is `FALSE`.

output_name

Character. Output RData file name. Default is `"signatures"`.

Value

List of signatures.

Author

Dongqiang Zeng

Examples

sig_data <- data.frame(
  Signature1 = c("Gene1", "Gene2", "Gene3", NA),
  Signature2 = c("Gene4", "Gene5", NA, NA)
)
format_signatures(sig_data)
#> ℹ There are 2 signatures
#> $Signature1
#> [1] "Gene1" "Gene2" "Gene3"
#> 
#> $Signature2
#> [1] "Gene4" "Gene5"
#>