SegmentationTools

QMRITools package: functions for segmenting muscle data using convolutional neural networks.

SegmentData — Segments out of phase Dixon muscle data.

ClassifyData — Classifies an image using a pretrained classification network.

TrainSegmentationNetwork — Train a network that can be used in SegmentData.

RunMuscleMap — Runs MuscleMap segmentation on a nii file or data.

DiceSimilarity  ▪  SurfaceDistance  ▪  JaccardSimilarity  ▪  MakeDistanceMap  ▪  CompareSegmentations  ▪  CommonLabels

MakeChannelClassImage  ▪  MakeChannelImage  ▪  MakeClassImage  ▪  MakeChannelClassGrid  ▪  MakeChannelGrid

ImportITKLabels  ▪  MuscleLabelToName  ▪  MuscleNameToLabel  ▪  $SegmentationLabels

AugmentTrainingData  ▪  AugmentImageData  ▪  PrepareTrainingData  ▪  GetTrainData  ▪  CheckSegmentation  ▪  ShowTrainLog  ▪  DataToPatches  ▪  PatchesToData  ▪  MakeTrainData  ▪  FindPatchDim  ▪  FreezeEncoderLayers  ▪  CopyTrainedNetwork

ApplySegmentationNetwork  ▪  SplitDataForSegmentation  ▪  SegmentDataGUI  ▪  GetNeuralNet