GPUs for Sequencing

[pssclabs]

Hi:

Has anyone been working with GPUs (ie nVidia Telsa) boards in developing a compute engine for sequence post processing?

Thank you.

[ffinkernagel]

Hi,

depends on what you mean by 'compute engine' and 'post processing'.

I've been working on an aligner running on a Tesla.

So Long.

[pssclabs]

Thank you. Have you seen any performance improvement using GPUs vs. traditional CPUs?

[ffinkernagel]

Well, my c implementation isn't tuned or anything, but I see quite a bit of speed up, ballpark around 50x.

[brianlamx]

I'm working on that actually and currently getting about 6-13x speedup. depends what algorithms you are working on.

[pssclabs]

Great. Thank you both for your feedback. Are you working with the nVidia Tesla card or other GPUs?

[brianlamx]

Currently working with a Tesla C1060 and a GTX295 and may move to openCL at some point.