We are recently using tuning-primer.sh and finding it is better than mysqltuner.
Insatllation
cd /usr/local/bin
wget https://launchpadlibrarian.net/78745738/tuning-primer.sh
chmod u+x tuning-primer.sh
mysqltuner looks like giving wrong suggestions sometimes. Also its not mysql 5.6 ready something which we are using everywhere.
Running
tuning-primer.sh
For example, mysqltuner on mysql 5.6 ask us to change value of table_cache variable. It is renamed to table_open_cache. So following mysqltuner suggestion blindly can be risky sometimes.
Though, both are good tools. Use both!