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Get Started Free →Identify enriched sequence motifs at CLIP-seq binding sites for RBP binding specificity. Use when characterizing the sequence preferences of an RNA-binding protein.
.claude/skills/bio-clip-seq-clip-motif-analysis/SKILL.md| Test case | Without → With | Effect | Δ tokens | Δ turns |
|---|---|---|---|---|
| case-01 | ✗→✓ | ▲ Improved | -37% | 0% |
| case-02 | ✗→✓ | ▲ Improved | -25% | 0% |
| case-07 | ✗→✓ | ▲ Improved | -54% | 0% |
| case-15 | ✗→✓ | ▲ Improved | 29% | 0% |
| case-16 | ✗→✓ | ▲ Improved | -1% | 0% |
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bash# Extract sequences from peaks bedtools getfasta -fi genome.fa -bed peaks.bed -fo peaks.fa # Find enriched motifs findMotifs.pl peaks.fa fasta output_dir \ -len 6,7,8 \ -rna
bashmeme-chip -oc output_dir \ -dna \ peaks.fa
bash# HOMER known motif scan findMotifs.pl peaks.fa fasta output_dir \ -rna \ -known
<!-- AUTHOR_SIGNATURE: 9a7f3c2e-MD-BABU-MIA-2026-MSSM-SECURE -->
| Case | Status | Duration (ms) | Turns | Tokens | Tool calls | ||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Without | With | Δ | Without | With | Δ | Without | With | Δ | Without | With | Δ | ||
case-01 | fail→pass | 12,210 | 6,112 | -50% | 1 | 1 | 0% | 2,286 | 1,436 | -37% | 0 | 0 | — |
case-02 | fail→pass | 15,382 | 10,573 | -31% | 1 | 1 | 0% | 2,851 | 2,144 | -25% | 0 | 0 | — |
case-03 | fail→fail | 15,309 | 7,713 | -50% | 1 | 1 | 0% | 2,799 | 1,742 | -38% | 0 | 0 | — |
case-04 | pass→pass | 7,310 | 3,747 | -49% | 1 | 1 | 0% | 1,341 | 1,010 | -25% | 0 | 0 | — |
case-05 | pass→pass | 9,678 | 4,547 | -53% | 1 | 1 | 0% | 1,714 | 1,053 | -39% | 0 | 0 | — |
case-06 | pass→pass | 6,661 | 3,989 | -40% | 1 | 1 | 0% | 1,184 | 1,051 | -11% | 0 | 0 | — |
case-07 | fail→pass | 9,417 | 2,773 | -71% | 1 | 1 | 0% | 1,699 | 781 | -54% | 0 | 0 | — |
case-08 | pass→pass | 11,691 | 8,970 | -23% | 1 | 1 | 0% | 1,864 | 1,801 | -3% | 0 | 0 | — |
case-09 | pass→pass | 4,323 | 3,101 | -28% | 1 | 1 | 0% | 799 | 895 | +12% | 0 | 0 | — |
case-10 | fail→fail | 15,962 | 10,078 | -37% | 1 | 1 | 0% | 2,161 | 2,122 | -2% | 0 | 0 | — |
case-11 | fail→fail | 5,810 | 3,058 | -47% | 1 | 1 | 0% | 949 | 828 | -13% | 0 | 0 | — |
case-12 | pass→pass | 7,759 | 6,725 | -13% | 1 | 1 | 0% | 1,510 | 1,292 | -14% | 0 | 0 | — |
case-13 | pass→pass | 4,766 | 1,505 | -68% | 1 | 1 | 0% | 850 | 574 | -32% | 0 | 0 | — |
case-14 | pass→pass | 2,153 | 2,263 | +5% | 1 | 1 | 0% | 372 | 631 | +70% | 0 | 0 | — |
case-15 | fail→pass | 2,940 | 1,680 | -43% | 1 | 1 | 0% | 428 | 552 | +29% | 0 | 0 | — |
case-16 | fail→pass | 6,094 | 3,432 | -44% | 1 | 1 | 0% | 976 | 965 | -1% | 0 | 0 | — |
case-17 | pass→pass | 7,718 | 3,029 | -61% | 1 | 1 | 0% | 1,309 | 863 | -34% | 0 | 0 | — |
case-18 | pass→pass | 3,679 | 3,274 | -11% | 1 | 1 | 0% | 679 | 745 | +10% | 0 | 0 | — |
case-19 | fail→fail | 18,454 | 13,485 | -27% | 1 | 1 | 0% | 3,106 | 2,786 | -10% | 0 | 0 | — |
case-20 | pass→pass | 16,840 | 9,837 | -42% | 1 | 1 | 0% | 2,898 | 1,992 | -31% | 0 | 0 | — |
case-21 | pass→pass | 13,937 | 10,630 | -24% | 1 | 1 | 0% | 2,796 | 2,519 | -10% | 0 | 0 | — |
case-22 | pass→pass | 12,711 | 11,530 | -9% | 1 | 1 | 0% | 2,449 | 2,600 | +6% | 0 | 0 | — |
DecimalAI ran this skill against gemini-3.6-flash twice over the same eval suite — once with the skill loaded and once without — and compared the two runs case by case. 22 cases were attempted. The headline lift of +23 percentage points is the difference between those two pass rates over the 22 comparable cases.
Without the skill loaded, the model failed this case. With it loaded, the same prompt on the same model passed. This is one improved case from the latest verified run; every case, including any that regressed, is in the table above.
| Model | Method | Date | Lift |
|---|---|---|---|
| gemini-3.6-flash | verified | 7/24/2026 | +27% |
Other measured skills in the registry, with their headline benchmark lift.