数据与复现生物信息与基因组学FreedomIntelligence/OpenClaw-Medical-Skills数据与复现

bio-primer-design-qpcr-primers

维护者 FreedomIntelligence · 最近更新 2026年4月1日

Design qPCR/RT-PCR primers with efficiency and specificity optimization.

OpenClawNanoClaw分析处理复现实验bio-primer-design-qpcr-primers🧠 bioos extended suitebioos extended bioinformatics suitedesign

原始来源

FreedomIntelligence/OpenClaw-Medical-Skills

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

维护者: FreedomIntelligence
许可: MIT
最近更新: 2026年4月1日

技能摘要

来自 SKILL.md 的关键信息

2 min

核心说明

Design primers 、 internal probes ，用于 quantitative PCR ，使用 primer3-py。
global_args = { 'PRIMER_PICK_INTERNAL_OLIGO'：1，'PRIMER_PRODUCT_SIZE_RANGE'：[[70，150]]，# Probe Tm should be 8-10C higher than primers 'PRIMER_OPT_TM'：60.0，'PRIMER_INTERNAL_OPT_TM'：70.0，# Probe should be closer to forward primer 'PRIMER_INTERNAL_MIN_SIZE'：18，'PRIMER_INTERNAL_MAX_SIZE'：30，# Avoid long poly-X runs in probe 'PRIMER_INTERNAL_MAX_POLY_X'：3，}。

原始文档

SKILL.md 摘录

For SYBR Green, design primers without probe

result = primer3.design_primers( seq_args={'SEQUENCE_TEMPLATE': sequence}, global_args={ 'PRIMER_PICK_LEFT_PRIMER': 1, 'PRIMER_PICK_RIGHT_PRIMER': 1, 'PRIMER_PICK_INTERNAL_OLIGO': 0, # No probe 'PRIMER_PRODUCT_SIZE_RANGE': [[70, 200]], # Short for qPCR 'PRIMER_OPT_TM': 60.0, 'PRIMER_MIN_TM': 58.0, 'PRIMER_MAX_TM': 62.0, 'PRIMER_MAX_SELF_ANY': 4, # Strict for SYBR specificity 'PRIMER_MAX_SELF_END': 2, 'PRIMER_PAIR_MAX_COMPL_ANY': 4, 'PRIMER_PAIR_MAX_COMPL_END': 2, } )


## Mark the exon junction position

exon_junction = 150  # Position where exons meet

result = primer3.design_primers(
    seq_args={
        'SEQUENCE_TEMPLATE': sequence,
        'SEQUENCE_OVERLAP_JUNCTION_LIST': [exon_junction],  # Primer must span
    },
    global_args={
        'PRIMER_PRODUCT_SIZE_RANGE': [[70, 150]],
        'PRIMER_OPT_TM': 60.0,
        'PRIMER_MIN_3_PRIME_OVERLAP_OF_JUNCTION': 4,  # Min bases on each side
    }
)

Design primers for multiple targets with compatible Tms

targets = [ {'name': 'gene1', 'seq': sequence1, 'target': [100, 30]}, {'name': 'gene2', 'seq': sequence2, 'target': [150, 30]}, ]

results = [] for target in targets: result = primer3.design_primers( seq_args={ 'SEQUENCE_TEMPLATE': target['seq'], 'SEQUENCE_ID': target['name'], 'SEQUENCE_TARGET': target['target'], }, global_args={ 'PRIMER_PICK_INTERNAL_OLIGO': 1, 'PRIMER_PRODUCT_SIZE_RANGE': [[70, 150]], 'PRIMER_OPT_TM': 60.0, # Same Tm for all 'PRIMER_MAX_TM': 61.0, 'PRIMER_MIN_TM': 59.0, 'PRIMER_INTERNAL_OPT_TM': 70.0, } ) results.append(result)

适用场景

Use bio-primer-design-qpcr-primers ，用于 genomics 、 bioinformatics workflows。
Apply bio-primer-design-qpcr-primers to sequencing，variant，或 omics analysis tasks。