Page Index - cerr/CERR GitHub Wiki

193 page(s) in this GitHub Wiki:

• Home
• Installing
• Sample Datasets
• Community/Support
• Tutorials
• access scan and label mask from planC
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• Auto Segmentation models
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• Benchmarking CERR Radiomics with other software
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• Building a deeplabv3 segmentation model
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• Building AI Models with CERR
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• CERR Extractor: Fusing DVH data with outcomes
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• CERROptions (user defined settings)
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• CoLlAGe
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• Command line tools
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• Comparison with Pyradiomics
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• Compiled version of CERR
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• Consensus Structure
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• Contouring (using reference series)
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• Contouring tools
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• Convert the output of calcGlobalRadiomicsFeatures.m to analyzable matrix format
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• Coordinate system
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• Crosslisting functions
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• Data Structure (The planC object)
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• Data structure for IMRTP
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• DCE MR Analysis
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• Deformable Image Registration (DIR)
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• Deploying AI models
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• Deriving New Structure
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• Directory Structure
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• dose volume histograms
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• Dosimetric models
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• DVH metrics in CERR
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• Editing Dose
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• Editing Scans
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• Editing Structures
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• example to obtain scan values within an roi for the patient cohort
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• example wrapper_function_for_radiomics_calculation
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• Extract patient outline
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• Extracting radiomics features for a patient cohort
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• First order (intensity) features
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• First order statistics
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• Gabor filter
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• GLCM_global_features
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• Global radiomics feature calculation parameters
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• GLRLM_global_features
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• GLSZM_global_features
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• Haralick texture features
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• Harmonizing structure names across a cohort
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• Higher order radiomics features
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• Histogram based scan metrics
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• Image preprocessing for deep learning based segmentation
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• Image Resampling
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• Importing Mha
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• Importing NIfTI data
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• Importing to CERR
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• Importing vendor specific data
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• IMRT optimization interfacing with an external solver
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• IMRTP GUI controls
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• Intensity volume histogram (IVH) features
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• Interfacing IMRT optimization with an external solver
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• JSON configuration for deep learning based segmentation
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• JSON settings for ROE
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• JSON settings for ROE (criteria)
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• JSON settings for ROE (models)
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• JSON settings for ROE (protocols)
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• Laplacian of Gaussian filter
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• Laws' textures
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• Mean filter
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• Measuring Background Parenchymal Enhancement (BPE) on MRI
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• Merging plans
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• NGLDM_global_features
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• NGTDM_global_features
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• Non model based analysis of DCE MRI
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• Optimal Mass Transport (OMT) distance
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• ORART Optimization example
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• Patch wise first order statistics
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• Peak and valley features
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• Plan Robustness Analysis
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• Pre processing directories for batch import
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• Preprocessing settings for scans
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• Quantize scan matrix
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• Radiomics
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• Radiomics models
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• Radiomics test suite
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• Radiotherapy Outcomes Estimator (ROE)
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• Reassigning Structure Color
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• ROE architcture
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• Running Singularity with Vagrant
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• Segment Labeler
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• Segmentation evaluation metrics
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• Shape features
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• sliCERR Extension for 3DSlicer
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• Sobel filter
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• Source code version of CERR
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• Texture calculation
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• Using ROE
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• Using SimpleITK filters
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• Viewer
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• Wavelet filter
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