pohl-michel / 3d-image-warping-using-nadaraya-watson-non-linear-regression

Deforming a 3D image according to a given deformation vector field with Nadaraya-Watson regression; 3rd repo in a series of 3 repos associated with the research article "Prediction of the motion of chest internal points using an RNN trained with RTRL for latency compensation in lung cancer radiotherapy" (Pohl et al, Comput Med Imaging Graph, 2021)

Hello world 👋

My name is Michel, and I am a machine learning engineer / research scientist living in the UK. 🇬🇧 💂‍♂️ ☔

I thought that I could introduce myself using some Python code below 🧑‍💻 🤪

Favorite weird food combo: avocado, mango, and shrimp salad 🥑 🥭 🍤

class FrogInOxford:

    def __init__(self):
        self.name = "Michel"
        self.location = "Oxford"
        self.previous_location = "Tokyo"
        self.eager_to_help = True
        self.joke_success_rate = 0.5

        self.current_project = {}
        self.side_project = {}

    def work(self):
        self.current_project["name"] = "AI for interstitial lung disease detection and treatment"
        self.current_project["organization"] = "Brainomix"
        self.current_project["tools"] = ["Machine learning", "Python", "Scikit-learn", "Pandas", "Docker"]
        self.current_project["start"] = datetime(year=2022, month=12, day=12)

        self.side_project["name"] = "MRI chest image prediction for radiotherapy"
        self.side_project["tools"] = ["Online learning of neural networks", "Video prediction", "Matlab"]

Some of my previous open-source works:

Deformable 3D image registration with Lucas-Kanade pyramidal optical flow	Time series forecasting with online learning of recurrent neural networks
Calculation of the motion of a lung tumor due to breathing using optical flow.	Prediction of the position of external markers on the chest to guide the radiation beam during lung radiotherapy. This will help compensate the latency of treatment systems and reduce irradiation to healthy tissues.

3d-image-warping-using-nadaraya-watson-non-linear-regression's Issues

Improve time performance

The code for image warping works but there may be ways to improve its time performance. For instance, the function "forward_warp3D" uses nested loops over the coordinates in the original image, but loops are slow in Matlab.