Plot Candidate ORFs

Visualize candidate ORFs along with entropy profile.

Usage

plot_candidate_orfs(
  scan_result,
  candidates,
  peaks = NULL,
  metric = "shannon_entropy"
)

Arguments

scan_result

Data frame from sliding_window_scan()

candidates

Data frame from find_candidate_orfs()

peaks

Optional data frame from entropy_peak_detection()

metric

Character string: "shannon_entropy" or "kl_divergence"

Value

A ggplot2 object

Examples

sequence <- paste(rep("ATGATGATGTTATTATTACGCCGCCGCC", 20), collapse = "")
result <- sliding_window_scan(sequence, window_size = 150, step_size = 30)
peaks <- entropy_peak_detection(result, threshold = 0.1)
#> Warning: No peaks detected with current threshold
candidates <- find_candidate_orfs(sequence, result, peaks)
#> Warning: No peaks provided, returning empty data frame
plot <- plot_candidate_orfs(result, candidates, peaks)