medicaldetectiontoolkit
nnUNet
medicaldetectiontoolkit | nnUNet | |
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2 | 11 | |
1,269 | 5,045 | |
0.3% | 3.6% | |
0.0 | 9.2 | |
29 days ago | 4 days ago | |
Python | Python | |
Apache License 2.0 | Apache License 2.0 |
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medicaldetectiontoolkit
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3D rcnn
Checkout https://github.com/MIC-DKFZ/medicaldetectiontoolkit, they have a recent 3d rcnn implementation. Their paper is a good start on the topic. Also have a look at nnDetection from the same group, it might provide some more leads. Hth
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3D Faster R-CNN for microscopy image analysis
I'm doing research in the area of biomedical image processing using deep learning. At the moment, I'm focused in the detection of biological structures in 3D microscopy images. For this task I trained a Faster R-CNN architecture, however I noticed that while the training loss is decreasing the validation loss is high, doesn't decrease and sometimes oscillates. When I looked at the results, the bounding boxes in the training and validation sets were too small but located at random spots. At first I thought that I should adjust the size of the anchors, however, even after trying different anchor sizes the results didn't improve. I would like to know if anyone has experience in working with 3D Faster R-CNN that could help me with suggestions for this project. (btw, I'm using the code available in this repo). Thanks in advance.
nnUNet
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Where to even begin to extract yellow spots from these pictures?
Now just run your images and masks in nnUNet to see if it works. https://github.com/MIC-DKFZ/nnUNet
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[D] Improvements/alternatives to U-net for medical images segmentation?
I would also try the nnU-Net which should give state-of-the-art performance, and so will give you a good idea of what's possible with the dataset that you have: https://github.com/MIC-DKFZ/nnUNet
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Seeking ideas for Road Damage Detection
I used the nnUnet repo and their guide on using it on your own data
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Model conversion from Pytorch to Tf using Onnx.
Hi all, Does anyone have experience with converting a nnUNet pytorch models into Tf using Onnx?
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[D] Best practices for training medical imaging models
If you want my honest opinion, you should probably always use nnUnet as a baseline for any 3d segmentation tasks - https://github.com/MIC-DKFZ/nnUNet.
- Image segmentation: huggingface segformers vs detectronv2
- How to get started with 3D computer vision?
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3D rcnn
Not a "detection" but a "segmenting" CNN: https://github.com/MIC-DKFZ/nnunet
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Underwhelming performance of Tesla V100 and A100 in vast.ai, why?
I ran some model fitting performance benchmarks on a 3D (medical) image segmentation UNET on various cloud providers and I am flabbergasted by the very low performance of V100 and A100 machines on vast.ai.
- [D] Which approach is recommended for Brain 🧠Tumor Segmentation on MRI scans (DICOM Files)?
What are some alternatives?
mmdetection3d - OpenMMLab's next-generation platform for general 3D object detection.
segmentation_models - Segmentation models with pretrained backbones. Keras and TensorFlow Keras.
Mask-RCNN-TF2 - Mask R-CNN for object detection and instance segmentation on Keras and TensorFlow 2.0
3d-multi-resolution-rcnn - Official PyTorch implementaiton of the paper "3D Instance Segmentation Framework for Cerebral Microbleeds using 3D Multi-Resolution R-CNN."
BlenderProc - A procedural Blender pipeline for photorealistic training image generation
mmpose - OpenMMLab Pose Estimation Toolbox and Benchmark.
MONAILabel - MONAI Label is an intelligent open source image labeling and learning tool.
albumentations - Fast image augmentation library and an easy-to-use wrapper around other libraries. Documentation: https://albumentations.ai/docs/ Paper about the library: https://www.mdpi.com/2078-2489/11/2/125
PaddleDetection - Object Detection toolkit based on PaddlePaddle. It supports object detection, instance segmentation, multiple object tracking and real-time multi-person keypoint detection.
segmentation_models.pytorch - Segmentation models with pretrained backbones. PyTorch.
BCNet - Deep Occlusion-Aware Instance Segmentation with Overlapping BiLayers [CVPR 2021]
s2ds