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Dicom_RT_and_Images_to_Mask
Tools to help with the conversion of DICOM images, RT Structures, and dose to useful Python objects. Essentially DICOM to NumPy and SimpleITK ImagesSegmentation_Evaluation_Tools
Tools for quantitative evaluation of prediction segmentations (Dice, Jaccard, volume similarity, false_negative, false_positive, mean, median, max, and std surface distances)Dicom_Data_to_Numpy_Arrays
For parallel creation of RT structures into numpy arrays for deep learning training purposesRegisteringImages
Tools for registering images with Dicom Registration filesCreate_RT_From_Dicom_and_Mask
This is for the creation of a Dicom_RT structure using a template RT structure, the dicom images, and a maskIntro_to_Raystation
small intro teaching some useful things for raystation along with basic codeCyclical_Learning_Rate
Code adapted from https://github.com/bckenstler/CLRAAPM_Summer_School_Workshop
This is a deformable registration code, adapted from the voxelmorph code available here: https://github.com/voxelmorph/voxelmorphMake_Single_Images
Converting 3D images into groups of 2D images for speed of loadingNifti_To_Dicom
Functions for turning nifti files to dicomData_Generators
Data generators that I useFinding_Optimization_Parameters
Tools to help find the best parameters for your networkImage_Processors_Module
Image processors for keras, predictive models, datasets, and example loadersAnonymize_Dicom
A simple tool to anonymize DICOM filesEasy_VGG16_UNet
This is code to create an easy to use VGG16 pre-training with UNet attachedTeaching-Python-to-Matlab-Users
Files for teaching python to matlab usersPDF_To_JPG_CSharp
A program which runs through a provided list of file locations to convert pdfs to jpegsWorkingWPythonAria
Some basic work w Python and AriaAW_Liver_Lobes_To_Raystation
Code for taking segmentations created on the AW and transforming them into Raystation segmentationsResample_Class
AAPM_SummerSchool_Jinzhong_Workshop
Raystation_Export_Oblique_Images_to_mhd
Export obliquely acquired examinations and ROIs to a folderAAPM_Summer_School_Court_Workshop
Copy_Folders
Function to copy folders from one location to anotherPlot_And_Scroll_Images
ExtractPlanInfo
A C# script for pulling information from Aria regarding a list of MRNsCallbacks
RCBV-Calculator
Prediction_Model_Class
My base class for letting the server predict from multiple modelsCopy-Shared-Google-to-Colab
This will let you copy over a folder from a shared link to your own work station in google colabMake_Raystation_Data_Structure
Go through all patients in a raystation database to create a structure of MRN, Cases, Exams, and roisKeras_Utils
Local_Recurrence_Work
Scripts to determine if local recurrence occurred within region of minimum ablationUnzip_Tool
A small tool to unzip filesBase_Deeplearning_Code
The base code that all of my deep learning projects will reference fromicecream_images
TeachingGithubProcedures
A simple repository designed to explain the commands of GitHubLiver_Lobe_Segments_Dicom_Curation_to_Niftii
Steps and code for processing dicom lobe segments to correct for overlapping/lacking segmentations to niftii arraysLove Open Source and this site? Check out how you can help us