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I need to simulate a computer with basic instruction set: Read, Write, Load, Store, Add, Subtract, Divide, Multiply and Branch.
I have no idea how i should set up my memory except that it can be an array. No idea how to set up the registers or interpret code supplied by a user using the above mnemonics to provide an executable program! Yes my simulation should be able to read a text file provided by someone coding with the stated instruction set.
Can anyone provide any assistance or guide lines? This is a 2nd year project at my university....

vote #1, just as clueless.  But I think that a good start would be to write subroutines with set arguments and just parse the text file and pass those variables to your internal subroutine.  Start with the easy instructions, then move on; just to get the creativity flowing.

Decode instructions, use jump-tables, do high-level execution of software-interrupts (that will provide BIOS and optionally DOS). .

Here's an example of call-table (do ask such questions in the board, not PM :) )

handleValue_00 proc
	ret
handleValue_00 endp

handleValue_01 proc
	ret
handleValue_01 endp

handleValue_02 proc
	ret
handleValue_02 endp

...
handleValue_FF proc
	ret
handleValue_FF endp


CallTable1 dd handleValue_00,handleValue_01,handleValue_02, .... handleValue_FF




ExecuteBytes proc
  NextByte:
	movzx eax, byte ptr 
	inc esi
	call dword ptr CallTable1
	
	cmp ShouldEmulatorExit,0
	je NextByte
	
	ret
ExecuteBytes endp

In some of those handleValue_xx procs, you will have to read more bytes from , depending on the instruction.

Any suggestions on how I might implement my memory? I was thinking an array....

Of course an array :)

Yup, definitely arrays FTW, man ^^