tngs-panel-design

name	tngs-panel-design
description	Use when an agent must turn primer pair candidates into a tiled or multiplex tNGS amplicon panel with target coverage, overlap, selected pairs, and uncovered gap reporting.

tNGS Panel Design

Use this skill when the deliverable is a panel rather than one diagnostic amplicon. Inputs should already be curated, aligned, and primer-QC checked.

Greedy Panel Selection

Candidate CSV/JSON must include pair_id, forward_sequence, reverse_sequence, amplicon_start, and amplicon_end.

python agentskill/scripts/primer_panel_qc.py design-panel \
  --candidates candidate_pairs.csv \
  --genome-length 30000 \
  --required-overlap 20 \
  --min-coverage 0.95 \
  --output panel_plan.json \
  --csv-output selected_panel.csv

Review Criteria

• Check coverage_fraction and every gap in panel_plan.json.
• Confirm amplicon size matches the sequencing platform and sample quality.
• Confirm selected pairs still pass wet-lab QC and specificity screening.
• Run pool assignment before wet-lab export.