<p>What software do you use to design LAMP reaction primers for alignment?  So far I have been using Primer Explorer v5 but I am looking for some alternatives.</p>
<p>Alignment includes some species from the same virus family. So I am looking for a set of primers that will capture species from the given alignment.</p>

CC BY-SA 4.0
2023-03-02T13:34:47.657Z
Please clarify your specific problem or provide additional details to highlight exactly what you need. As it's currently written, it's hard to tell exactly what you're asking.
Community
CC BY-SA 4.0
2023-03-02T13:36:35.340Z
Welcome to the site. What is the depth of study and degeneracy, e.g. within a species, genera, or family ... or beyond? This is kinda important to identify which algorithm.
M__
CC BY-SA 4.0
2023-03-03T03:34:35.627Z
Thanks, woooaa thats difficult. I might have misunderstood this but if its an RNA virus diagnosis at the familial level that is not trivial. The mutation rate of RNA viruses is very high - at familial level, it's impossibly high excepting for the use of nested-PCR strategies.
M__
<primer><design>
LAMP primers design software
# LAMP primers design software

(Asked by: username_0 on 2023-03-02)

What software do you use to design LAMP reaction primers for alignment? So far I have been using Primer Explorer v5 but I am looking for some alternatives.

Alignment includes some species from the same virus family. So I am looking for a set of primers that will capture species from the given alignment.

**Tags:** primer, design
> **Comments:**
> **username_1**: Please clarify your specific problem or provide additional details to highlight exactly what you need. As it's currently written, it's hard to tell exactly what you're asking.  
> **username_2**: Welcome to the site. What is the depth of study and degeneracy, e.g. within a species, genera, or family ... or beyond? This is kinda important to identify which algorithm.  
> **username_2**: Thanks, woooaa thats difficult. I might have misunderstood this but if its an RNA virus diagnosis at the familial level that is not trivial. The mutation rate of RNA viruses is very high - at familial level, it's impossibly high excepting for the use of nested-PCR strategies.  

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## 0 answers

