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bio-primer-design-primer-validation

Maintainer FreedomIntelligence · Last updated April 1, 2026

Validate primer specificity by BLAST and thermodynamic analysis.

OpenClawNanoClawAnalysisReproductionbio-primer-design-primer-validation🧠 bioos extended suitebioos extended bioinformatics suitevalidate

Original source

FreedomIntelligence/OpenClaw-Medical-Skills

https://github.com/FreedomIntelligence/OpenClaw-Medical-Skills/tree/main/skills/bio-primer-design-primer-validation

Maintainer: FreedomIntelligence
License: MIT
Last updated: April 1, 2026

Skill Snapshot

Key Details From SKILL.md

2 min

Key Notes

Check primers for secondary structures, dimers, and other issues using primer3-py.
annealing_temp = 60.0 if hairpin.tm > annealing_temp - 10: print(f'WARNING: Hairpin Tm too high for annealing at {annealing_temp}C').

Source Doc

Excerpt From SKILL.md

Check Hairpin Formation

primer = 'ATGCGATCGATCGATCGATC'

hairpin = primer3.calc_hairpin(primer)
print(f'Hairpin Tm: {hairpin.tm:.1f}C')
print(f'Hairpin dG: {hairpin.dg:.1f} cal/mol')
print(f'Hairpin dH: {hairpin.dh:.1f} cal/mol')
print(f'Hairpin dS: {hairpin.ds:.1f} cal/mol/K')

## Check Self-Dimer (Homodimer)

```python
primer = 'ATGCGATCGATCGATCGATC'

homodimer = primer3.calc_homodimer(primer)
print(f'Homodimer Tm: {homodimer.tm:.1f}C')
print(f'Homodimer dG: {homodimer.dg:.1f} cal/mol')

## Self-dimer is problematic if Tm is close to annealing temp

if homodimer.tm > 40:
    print('WARNING: Significant self-dimer potential')

Use cases

Use bio-primer-design-primer-validation for genomics and bioinformatics workflows.
Apply bio-primer-design-primer-validation to sequencing, variant, or omics analysis tasks.