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Annotate Transcripts with Differential Gene Expression Significance

Source: R/is_deg_sig.R
is_deg_sig.Rd

Adds a column to a transcript-level differential expression table indicating whether each transcript originates from a gene that is significantly differentially expressed.

Usage

is_deg_sig(deg_sig_vector, det_table)

Arguments

deg_sig_vector

A character vector containing the names of transcripts from significantly differentially expressed genes.

det_table

A data.frame or tibble containing transcript-level differential expression results, including a transcript_name column.

Value

A tibble with an additional column DEG_sig indicating whether the transcript is from a significantly differentially expressed gene ("YES" or "NO"). Row order matches the input det_table.

Examples

# Sample data
significant_transcripts <- c("transcript1", "transcript3")
det_table <- data.frame(
  transcript_name = c("transcript1", "transcript2", "transcript3", "transcript4"),
  log2FC = c(2.5, -1.2, 0.8, -0.5),
  pvalue = c(0.01, 0.2, 0.03, 0.6)
)

# Annotate transcripts with DEG significance
det_table_annotated <- is_deg_sig(
  deg_sig_vector = significant_transcripts,
  det_table = det_table
)

# View the result
print(det_table_annotated)
#>   transcript_name log2FC pvalue DEG_sig
#> 1     transcript1    2.5   0.01     YES
#> 2     transcript2   -1.2   0.20      NO
#> 3     transcript3    0.8   0.03     YES
#> 4     transcript4   -0.5   0.60      NO