monai_uf_tutorials

This repository hosts tutorials for using MONAI on UF HiperGator.

Download this repository on HiperGator

Log in to HiperGator, change hju to your HiperGator username

ssh hju@hpg.rc.ufl.edu

Go to your home directory

cd ~

Download this repository into a local directory. The default name of the directory is monai_uf_tutorials.

git clone https://github.com/hw-ju/monai_uf_tutorials.git

Make all files in the directory executable

chmod -R +x monai_uf_tutorials/

Contents

1. use MONAI Core for single-GPU training
2. use MONAI Core for multi-GPU training
3. use MONAI Core for Swin UNETR training & evaluation for BRATS21
4. use MONAI Core for Swin UNETR self-supervised pretraining for BTCV
5. use MONAI Core for Swin UNETR training & evaluation for BTCV
6. use MONAI Core for dynunet(nnUnet) training
7. use Datasets accelerated by caching in MONAI Core
8. performance profiling of MONAI Core training by NVIDIA Nsight Systems
9. Use Clara Parabricks on HiperGator
10. Run GPU-Accelerated Single-Cell Genomics Analysis with RAPIDS on HiperGator