- Mar 18, 2008
- 4,211 (1.03/day)
|System Name||Virtual Reality / Bioinformatics|
|Motherboard||Undead TUF X99|
|Memory||GSkill 128GB DDR4-3000|
|Video Card(s)||EVGA 2080Ti|
|Storage||Samsung 960 Pro 1TB + 860 EVO 2TB + WD Black 5TB|
|Display(s)||Acer K272HUL, HTC Vive|
|Case||Fractal Design R5|
|Audio Device(s)||BOSE 2.0|
|Power Supply||Seasonic 850watt|
|Mouse||Logitech Master MX|
|Keyboard||Corsair K70 Cherry MX Blue|
|Software||Windows 10 Professional/Linux Mint|
I gotta say in terms of supporting scientific research, Nvidia is second to none. Waayyy better than ALL the other hardware tech giant COMBINED!
So we had this amazing Nanopore based DNA sequencing machine mentioned previously in this thread:
One major problem was the speed of base calling during real time sequencing rarely able to catch up with the generation of raw data=====> From current signal squiggle plot to A, T, C, G basepairs. My 10c20t 6950X has been constantly pegged to the max during sequencing runs at 4.2GHz. Those 1950X build and 2990WX build I helped built a while ago did solve the problem. However most of the time the CPU were still used to 100%, which is CRAZY for a 32 core 64 thread 2990WX running all core 4.1GHz. That prevented anything else from being done on the workstation when sequencing is going.
A lot of the work of base calling involves machine learning based deconvolution of current signals. So naturally some researchers started thinking about using GPU to acceleate that process. The developer of Oxford Nanopore reached to the GPU makers on the market for help. One company responded with a bunch of nothing, while another designated an entire programmer team to helping out. Yep Nvidia's CUDA development team IMMEDIATELY reached out for help on getting CUDA acceleration to work for Oxford Nanopore.
So all in short, within a few months we got a CUDA working on basecalling! So we tried with an RTX 2080 and holy shit IT IS FAST!
Needless to say I will be trying this with my 2080Ti very soon. And if things goes well some lab may be getting a new RTX Titan to aid in CUDA acceleration. Gotta say Nvidia's CUDA support is truly amazing and they are truly committed to helping out scientific research.
I believe there are works currently going on for utilizing the Tensor cores in the RTX series for even better performance. We shall see how that play out. I am very excited for the new era of DNA sequencing. $1000~$1500 for a full 30X coverage human genome with all DNA methylation mapped out. This is unthinkable even 5 years ago. Now it can be performed on a handheld sequencing machine with a beefy gaming GPU equipped PC. Unreal
Oh and if you are near Nvidia HQ at California here are some good workshops, well if you are a computer nerd that is also a genetics nerd