Tidy DESeq2 results into a tibble.

Extract results from a DESeq2 analysis and return a tidy tibble with tRNA identifiers and significance flags.

Usage

tidy_deseq_results(dds, contrast, padj_cutoff = 0.05)

Arguments

dds

A DESeqDataSet object (from run_deseq()).

contrast

A contrast specification: either a character vector of length 3 (e.g., c("condition", "mutant", "wildtype")) or a list for coefficient-based contrasts.

padj_cutoff

Adjusted p-value threshold for significance. Default 0.05.

Value

A tibble with columns: ref, log2FoldChange, lfcSE, pvalue, padj, and significant (logical).

Examples

if (FALSE) { # \dontrun{
res <- tidy_deseq_results(dds, contrast = c("condition", "mut", "wt"))
res
} # }