Design PCR primers from DNA sequence. Widely used (190k Google hits for "primer3"). From mispriming libraries to sequence quality data to the generation of internal oligos, primer3 does it. C&perl.
sudo apt-get install -y build-essential g++ cmake git-all
git clone https://github.com/primer3-org/primer3.git primer3
cd primer3/src
make
make test
./primer3_core ../example
or see /src/primer3_manual.htm
