Software

YASE is a modular digital audio synthesis and processing library designed specifically to teach digital audio synthesis. You can use it to make sounds, sequences, and effects. You can connect MIDI devices and sounds sources.

Aquarium is a framework for semi-formally representing wetlab protocols and methods as executable computer code. You write protocols our new language, called Plankton, and keep them under version control in github. The protocols are interpreted by Aquarium by displaying each step to a lab technician working at the bench. Every step, every piece of data, every sample used, is tracked and detailed logs of the execution of the protocol are saved. Cameras, RFID readers, and other sensors track even more details. The result is 99% reproducible methods!

gro is a language for programming the behavior of cells in growing microcolonies of microorganisms. An associated simulator models cell growth, cell division, intrinsic and extrinsic noise, diffusing molecular signals, and more. gro is used to prototype multicell behaviors and check that local interaction rules produce the desired global result. The language allows behaviors to be specified at whatever level of abstraction makes sense: from high level code, to low level biomolecular interations.