Body: <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>
  
Comments.ContentLicense: CC BY-SA 4.0
Comments.CreationDate: 2023-03-02T13:34:47.657Z
Comments.Text: 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.
Comments.UserDisplayName: Community
Comments.ContentLicense: CC BY-SA 4.0
Comments.CreationDate: 2023-03-02T13:36:35.340Z
Comments.Text: 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.
Comments.UserDisplayName: M__
Comments.ContentLicense: CC BY-SA 4.0
Comments.CreationDate: 2023-03-03T03:34:35.627Z
Comments.Text: 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.
Comments.UserDisplayName: M__
Tags: <primer><design>
Title: LAMP primers design software
ThreadText: # 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
  
  