Cleaning tools may work, or they may not. Particularly pernicious malware can be programmed to look for and work around said tools. Installing and scanning with various tools can take up a lot of time, and then there's always that nagging doubt as to whether or not it really got it. So as a plan D:
Backup data ONLY. No applications.
Then
Repartition, reformat, reinstall.
"I say we take off and nuke the site from orbit - it's the only way to be sure" - Ripley