kevinmtian / learningnote

A learning record of my course for deep learning

LearningNote

A record of my course for academic learning

Contents

• Programming Frameworks
• Journals & Conferences
• Resources
• Papers

Programming Frameworks

Libraries	Usage
ANTsPy	Medical Registration & Segmentation
CuPy	GPU Programming
Gym	Reinforcement Learning
Kornia	Differentiable Computer Vision
MedPy	Medical Imaging Processing
Numba	Optimizing Compiler
OpenCV	Computer Vision
Psutils	CPU Monitor
Pywick	High-level Training
PyTorch	General Deep Learning
PyTorch	3D Computer Vision
PyTorch Geometric	Geometric Deep Learning
PyVista	Hyper Module for VTK
SimpleITK	Image Analysis
TensorRT	High-performance Inference
Torchinfo	Model Summary
TorchIO	3D Medical Images for Deep Learning
Torch Optimizer	Optimization
Trimesh	IO for Mesh

Journals & Conferences

Journal	IF	中科院分区
Computer Methods and Programs in Biomedicine	3.632	2区
Frontiers in Neuroscience	3.707	3区
Frontiers in Radiology	TBD	TBD
IEEE Journal of Biomedical And Health Informatics	5.223	2区 Top
IEEE Transactions on Biomedical Engineering	4.424	2区
IEEE Transactions on Computational Imaging	4.015	2区
IEEE Transactions on Cybernetics	11.079	1区 Top
IEEE Transactions on Medical Imaging	6.685	1区 Top
IEEE Transactions on Pattern Analysis and Machine Intelligence	17.861	1区 Top
International Journal of Computer Vision	5.698	1区 Top
Medical Image Analysis	11.148	1区 Top
Medical Physics	3.317	2区
Nature Biomedical Engineering	18.952	1区 Top
Nature Communications	12.121	1区 Top
Nature Computational Science	TBD	TBD
Nature Machine Intelligence	TBD	TBD
Nature Medicine	36.13	1区 Top
Neurocomputing	4.438	2区 Top
NeuroImage	5.902	1区 Top
Pattern Recognition	7.196	1区 Top
PNAS	9.412	1区 Top
Radiology	7.931	1区 Top
Science Advances	13.116	1区 Top
Ultrasound in Medicine & Biology	2.514	3区

Conference	Abbr
ACM International Conference on Multimedia	ACM MM
Asian Conference on Computer Vision	ACCV
British Machine Vision Conference	BMVC
Conference on Computer Vision and Pattern Recognition	CVPR
Conference on Neural Information Processing Systems	NeurIPS
European Conference on Computer Vision	ECCV
International Conference on Computer Vision	ICCV
International Conference on Learning Representations	ICLR
International Conference on Machine Learning	ICML
International Conference on Medical Image Computing and Computer Assisted Intervention	MICCAI
International Symposium on Biomedical Imaging	ISBI
Medical Imaging with Deep Learning	MIDL

Resources

Resource	Content
MCVAE	Official code for multi-task and multi-channel VAE
Procrustes Analysis	Python code for Procrustes analysis
Pair Norm	Official code for pair normalization
Segmentation losses	Collection of the segmentation losses

Papers

Paper list for deep learning in computer vision and medical image computing

Paper	Publication	Year
Summary, Survey & Review
Deep Learning	Nature	2015
A Survey on Deep Learning in Medical Image Analysis	MedIA	2017
Bag of Tricks for Image Classification with Convolutional Neural Networks	CVPR	2019
Deep Learning in Medical Ultrasound Analysis: A Review	Engineering	2019
Self-supervised Visual Feature Learning with Deep Neural Networks: A Survey	IEEE TPAMI	2020
A Comprehensive Survey on Graph Neural Networks	IEEE TNNLS	2020
A Review of Uncertainty Quantification in Deep Learning: Techniques, Applications and Challenges	arXiv	2021
Curriculum Learning: A Survey	arXiv	2021
Loss Odyssey in Medical Image Segmentation	MedIA	2021
Basic Technology
Dropout: A Simple Way to Prevent Neural Networks from Overfitting	JMLR	2014
Batch Normalization: Accelerating Deep Network Training by Reducing Internal Covariate Shift	ICML	2015
Instance Normalization: The Missing Ingredient for Fast Stylization	arXiv	2016
Layer Normalization	NeurIPS	2016
Arbitrary Style Transfer in Real-time with Adaptive Instance Normalization	ICCV	2017
Group Normalization	ECCV	2018
DropBlock: A Regularization Method for Convolutional Networks	NeurIPS	2018
Classification & Recognition
ImageNet Classification with Deep Convolutional Neural Networks	NeurIPS	2012
Very Deep Convolutional Networks for Large-Scale Image Recognition	ICLR	2015
Going Deeper with Convolutions	CVPR	2015
Deep Residual Learning for Image Recognition	CVPR	2016
Identity Mappings in Deep Residual Networks	ECCV	2016
Inception-v4, Inception-ResNet and the Impact of Residual Connections on Learning	AAAI	2017
Densely Connected Convolutional Networks	CVPR	2017
Aggregated Residual Transformations for Deep Neural Networks	CVPR	2017
Dynamic Routing Between Capsules	NeurIPS	2017
Squeeze-and-Excitation Networks	CVPR	2018
Non-local Neural Networks	CVPR	2018
CBAM: Convolutional Block Attention Module	ECCV	2018
MixConv: Mixed Depthwise Convolutional Kernels	BMVC	2019
Drop an Octave: Reducing Spatial Redundancy in Convolutional Neural Networks with Octave Convolution	ICCV	2019
Res2Net: A New Multi-scale Backbone Architecture	IEEE TPAMI	2019
Focus Longer to See Better: Recursively Refined Attention for Fine-grained Image Classification	CVPR	2020
RepVGG: Making VGG-style ConvNets Great Again	arXiv	2021
Segmentation
Fully Convolutional Networks for Semantic Segmentation	CVPR	2015
Bayesian SegNet: Model Uncertainty in Deep Convolutional Encoder-Decoder Architectures for Scene Understanding	arXiv	2015
U-Net: Convolutional Networks for Biomedical Image Segmentation	MICCAI	2015
3D U-Net: Learning Dense Volumetric Segmentation from Sparse Annotation	MICCAI	2016
V-Net: Fully Convolutional Neural Networks for Volumetric Medical Image Segmentation	3DV	2016
SegNet: A Deep Convolutional Encoder-Decoder Architecture for Image Segmentation	IEEE TPAMI	2017
UNet++: A Nested U-Net Architecture for Medical Image Segmentation	DLMIA	2018
VoxResNet: Deep Voxelwise Residual Networks for Brain Segmentation from 3D MR Images	NeuroImage	2018
Attention U-Net: Learning Where to Look for the Pancreas	MIDL	2018
ICNet for Real-Time Semantic Segmentation on High-Resolution Images	ECCV	2018
H-DenseUNet: Hybrid Densely Connected UNet for Liver and Tumor Segmentation From CT Volumes	IEEE TPAMI	2018
DeepLab: Semantic Image Segmentation with Deep Convolutional Nets, Atrous Convolution, and Fully Connected CRFs	IEEE TPAMI	2018
Recalibrating Fully Convolutional Networks with Spatial and Channel “Squeeze and Excitation” Blocks	IEEE TMI	2018
Collaborative Global-Local Networks for Memory-Efficient Segmentation of Ultra-High Resolution Images	ICCV	2019
Uncertainty-aware Self-ensembling Model for Semi-supervised 3D Left Atrium Segmentation	MICCAI	2019
Dual Attention Network for Scene Segmentation	CVPR	2019
Capsules for Biomedical Image Segmentation	MedIA	2020
LT-Net: Label Transfer by Learning Reversible Voxel-wise Correspondence for One-shot Medical Image Segmentation	CVPR	2020
Self-supervised Equivariant Attention Mechanism for Weakly Supervised Semantic Segmentation	CVPR	2020
PointRend: Image Segmentation as Rendering	CVPR	2020
Detection
Rich Feature Hierarchies for Accurate Object Detection and Semantic Segmentation	CVPR	2014
Fast R-CNN	ICCV	2015
Faster R-CNN: Towards Real-Time Object Detection with Region Proposal Networks	NeurIPS	2015
Spatial Pyramid Pooling in Deep Convolutional Networks for Visual Recognition	IEEE TPAMI	2015
SSD: Single Shot MultiBox Detector	ECCV	2016
Focal Loss for Dense Object Detection	ICCV	2017
Feature Pyramid Networks for Object Detection	CVPR	2017
Mask R-CNN	ICCV	2017
Registration
An Unsupervised Learning Model for Deformable Medical Image Registration	CVPR	2018
Weakly-supervised Convolutional Neural Networks for Multi-modal Image Registration	MedIA	2018
Adversarial Learning for Mono- or Multi-modal Registration	MedIA	2019
Adversarial Uni- and Multi-modal Stream Networks for Multimodal Image Registration	MICCAI	2020
Unsupervised Multi-Modal Image Registration via Geometry Preserving Image-to-Image Translation	CVPR	2020
Reinforcement Learning
Human-level Control through Deep Reinforcement Learning	Nature	2015
Deep Reinforcement Learning with Double Q-learning	AAAI	2016
Dueling Network Architectures for Deep Reinforcement Learning	ICML	2016
Prioritized Experience Replay	ICLR	2016
Learning to paint with model-based deep reinforcement learning	ICCV	2019
Evaluating Reinforcement Learning Agents for Anatomical Landmark Detection	MedIA	2019
Multi-Scale Deep Reinforcement Learning for Real-Time 3D-Landmark Detection in CT Scans	IEEE TPAMI	2019
Self-supervised Learning
Robust Learning Through Cross-Task Consistency	CVPR	2020
Momentum Contrast for Unsupervised Visual Representation Learning	CVPR	2020
A Simple Framework for Contrastive Learning of Visual Representations	arXiv	2020
Geometric Learning
Variational Graph Auto-Encoders	arXiv	2016
A Point Set Generation Network for 3D Object Reconstruction from a Single Image	CVPR	2017
Generating 3D faces using Convolutional Mesh Autoencoders	ECCV	2018
3D Cardiac Shape Prediction with Deep Neural Networks: Simultaneous Use of Images and Patient Metadata	MICCAI	2019
Pixel2Mesh: 3D Mesh Model Generation via Image Guided Deformation	IEEE TPAMI	2020
Learning to Infer Semantic Parameters for 3D Shape Editing	arXiv	2020
Learning Part Generation and Assembly for Structure-Aware Shape Synthesis	AAAI	2020
Voxel2Mesh: 3D Mesh Model Generation from Volumetric Data	MICCAI	2020
Joint Learning of 3D Shape Retrieval and Deformation	arXiv	2021
NEMO : Neural Mesh Models of Contrastive Feature for Robust 3D Pose Estimation	ICLR	2021
Generative, Super-resolution & Simulation Model
Auto-Encoding Variational Bayes	arXiv	2013
MRISIMUL: A GPU-Based Parallel Approach to MRI Simulations	IEEE TMI	2017
Unpaired Image-to-Image Translation using Cycle-Consistent Adversarial Networks	ICCV	2017
Image-to-Image Translation with Conditional Adversarial Nets	CVPR	2017
Learning to Simulate Complex Scenes	ACM MM	2019
Sparse Multi-Channel Variational Autoencoder for the Joint Analysis of Heterogeneous Data	ICML	2019
Learning to Simulate	ICLR	2019
Learning Conditional Deformable Templates with Convolutional Networks	NeurIPS	2019
Sparse Multi-Channel Variational Autoencoder for the Joint Analysis of Heterogeneous Data	ICML	2019
Parameter-Free Style Projection for Arbitrary Style Transfer	arXiv	2020
Best-Buddy GANs for Highly Detailed Image Super-Resolution	arXiv	2021
View Planning
SonoNet: Real-Time Detection and Localisation of Fetal Standard Scan Planes in Freehand Ultrasound	IEEE TMI	2017
Ultrasound Standard Plane Detection Using a Composite Neural Network Framework	IEEE TCs	2017
Standard Plane Detection in 3D Fetal Ultrasound Using an Iterative Transformation Network	MICCAI	2018
Automatic View Planning with Multi-scale Deep Reinforcement Learning Agents	MICCAI	2018
Ultrasound Video Summarization using Deep Reinforcement Learning	MICCAI	2020