Question: (Closed) Best Tool For Primer Design?
0
gravatar for Dan
7.1 years ago by
Dan520
Cambridge
Dan520 wrote:

I'm a total noob... which tool would you recommend to use to design pimers against genes in a 'large' (800 Mbp) plant genome?

software primer pcr • 1.8k views
ADD COMMENTlink written 7.1 years ago by Dan520
2

Hi Dan, we had similar questions quite often (too often to list all similar questions at least), when you just click on the primer tag you'll get ample help (or primer). So I think I should close it, sorry for that.

ADD REPLYlink modified 7.1 years ago • written 7.1 years ago by Michael Dondrup47k

Sorry, I tried a search and only found discussions of specific cases of specific tools. I thought a specific question would be a good idea to focus the replies.

ADD REPLYlink written 7.1 years ago by Dan520

Yes, it would be a good idea, but what is specific about this question? Imho, your other question was more specific than this. Anyway, nothing much (afaik) has changed in state-of-the-art primer design.

ADD REPLYlink written 7.1 years ago by Michael Dondrup47k
1

I would also like to refer you to question from 3 years ago: How to find a 28bp 'primer' sequence in a genome? which has the most total votes under category 'primer', you might know it?

ADD REPLYlink written 7.1 years ago by Michael Dondrup47k

Thanks, I came here looking for that post actually, but couldn't find it. I guess I need to learn how to search better! I think it's a shame that this very specific question was closed, as I don't see any other question so clearly phrased. Please correct me if I'm wrong.

ADD REPLYlink written 7.1 years ago by Dan520

If you look at your user profile, you can see all your questions you have ever asked under: "N Questions" or see http://www.biostars.org/show/user/105/question/ other content types respectively.

ADD REPLYlink modified 7.1 years ago • written 7.1 years ago by Michael Dondrup47k

To me this is the quintessential example of why post closing is not useful.

  1. Does not improve the content
  2. we can't find out if there is a new better tool for primer desing,
  3. discourages a user from asking questions

All it adds a lot of back and forth arguments that is not about bioinformatics, adds to overall noise and negative sentiment.

If anything it decreases the utility of the site.

ADD REPLYlink written 7.1 years ago by Istvan Albert ♦♦ 85k

I think this is a special case where the user forgot about his own post and the post is just superficial and not helpful. So I see no reason to open it again.

ADD REPLYlink written 7.1 years ago by Michael Dondrup47k
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