Employer has not paid my wages

You must be a very tuccha doctor indeed who can't even pronounce his speciality and worked on terms such that even a doggy will poop.

Can a bounced cheque can be used for legal purposes

mind your language sir. 

Yes you can use it. If anything is due towards you have every right to recover it. You may file a recovery suit and if you have a contract then you may also proceed under order 37

The owner may try to confuse between Contract for Service , Contract of Service and decline employer-employee relationship.

If your work was like that of regular employee ( Doctor) you can succeed.

The bounced cheque and attendance record, work done etc can be of support to get outstanding payments from owners.

Local counsel can help you.