Parallel Computing in Bioinformatics using the GPU

Question

[pm814]

Hi all,

I would like to establish parallel computing by using the GPU of my M2000 Nvidia graphics card. I was wondering if this works for all software, in my case bioinformatics software like PASTA (Python platform), or is it limited to certain programming platforms or particular software/libraries provided by the parallel computing API such as CUDA?

Thanks

[steve]

you need to use software that is specifically designed to utilize CUDA, etc.

[novice]

If you do go down the route of GPU programming, I'd suggest you take a look at Buhler & Cole's MERCATOR. Its purpose is to simplify CUDA programming by generating most of the dirty code for you. It is quite recent so I haven't used it myself yet but I expect I will have to very soon.

Answer 1

[Alex Reynolds]

You'll need to research your card, your software-of-interest, and what framework it uses to interface with a GPU. Your card appears to support CUDA and OpenCL framework versions listed here.