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Misaiel Dominguez

Can Primer-BLAST be run locally?

Bruce R. Miller  Follow

To strictly answer the question its not possible because it is a pipeline based on Primer3 which is not written by NCBI, therefore they would not be in a position to distribute it. Nor would Primer3 be able to distribute Blast because that is NCBI. It is simply a web-server.

NCBI and Primer3 would need to come to a joint agreement, which they must have done to present the webserver (at least it would be polite). You can of course replicate the pipeline yourself.

Brief details are here,https://www.ncbi.nlm.nih.gov/tools/primer-blast/primerinfo.html


Wait it can be done via Docker. This exact pipeline hasn't been distributed via Docker but others have and Blast is available as a Docker image. So I correct myself ... its definitely feasible. Using Docker takes a bit of a learning curve but its worth it.

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