List of Neuroinformatics Tools w/ GPU-based Implementations
- General Page on Medical Imaging Using Nvidia GPUs
- ITK page on GPU Acceleration (possibly useful for making ANTS go faster)
- recon-all and mrisurf (Freesurfer) (paper).
- BROCCOLI
- GLIRT (article)
- Another GPU-based implementation of FLIRT
- GPU-Accelerated FLIRT and ANTS
- FSL's bedpost-x
- CEREBRuM
- Google FFN and here
- CLIJ (an ImageJ plugin that maps macro calls to OpenCL calls)
- http://on-demand.gputechconf.com/gtc/2017/presentation/S7342-robert-zigon-data-mining-in%20neuroimagic-%20genomics.pdf
How exactly do GPUs work anyways?
- How a GPU Works by Kayvon Fatahalian (course website
- GPGPU Lectures at Haifa LUG by Ofer Rosenberg
- Summary in the article about GPU-enabled FSL bedpost-x
- CUDA Streams Best Practices
- Programming GPUs with SYCL
Debugging GPUS
Discussions
AFNI
- https://afni.nimh.nih.gov/afni/community/board/read.php?1,143063,143063
- https://afni.nimh.nih.gov/afni/community/board/read.php?1,71356,71365
- https://afni.nimh.nih.gov/afni/community/board/read.php?1,67402,73081
Exciting News for AFNI
- https://www.openmp.org/updates/openmp-accelerator-support-gpus/
- http://on-demand.gputechconf.com/gtc/2018/presentation/s8344-openmp-on-gpus-first-experiences-and-best-practices.pdf
ANTS
- https://sourceforge.net/p/advants/discussion/840260/thread/260e1e38/
- https://sourceforge.net/p/advants/discussion/840260/thread/4b134259/
FSL
ImageJ
ITK
- https://discourse.itk.org/t/status-of-itk-gpu/277/8
- https://itk.org/Wiki/ITK/Release_4/GPU_Acceleration
Misc
The case for consumer GPUs over enterprise GPUs:
- https://lambdalabs.com/blog/best-gpu-tensorflow-2080-ti-vs-v100-vs-titan-v-vs-1080-ti-benchmark/
- https://timdettmers.com/2019/04/03/which-gpu-for-deep-learning/