Primerize Documentation¶
Primerize (previously named NA_thermo), is an archive of Python and MATLAB scripts for primer design and nucleic acid thermodynamic scripts developed by the Das Lab at Stanford University for high-throughput RNA synthesis and design.
The algorithm designs forward (sense strand) and reverse (anti-sense strand) primers that minimize the total length, and therefore the total synthesis cost, of the oligonucleotides. Although developed independently, Primerize is a special case of the general ‘Gapped Oligo Design’ algorithm, optimizing the mispriming score and sequence span instead of Tm.
An online user-friendly GUI is available as the Primerize Server.
Table of Contents¶
Experimental Protocol¶
Please visit the Primerize server for a complete guidance on primer designs and RNA synthesis:
Reference¶
Workflows¶
- I have just discovered an RNA molecule
- I want to learn an RNA’s secondary structure
- I want to test an RNA secondary structure model
- I think my RNA has interesting alternative states
Developed by Das lab, Leland Stanford Junior University.
README by t47, January 2016.