How to know the data set after augment?
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Hello everyone,
I was developed the coding for augmented my data for trainning process using 3D U-Net network. But I dont know how to find the addition data after augment? Because I checked in workspace but not found. Below is my coding, the function @augment3dPatch is for augment data
Also I attached the function for running my coding.
The data for image training (ImagesTr), groundtruthlabeling training (LabelsTr), image validation (imagesVal ), groundtruth validation (labelsVal) can download thru this link https://drive.google.com/drive/folders/176Ffn3d-61HFYiK7ywFFD9rRuzmXnN26?usp=share_link
clc
clear all
close all
%testDataimages
DATASetDir = fullfile('C:\Users\Akmal\Desktop\NEW 3D U NET');
IMAGEDir = fullfile(DATASetDir,'ImagesTr');
volReader = @(x) matRead(x);
volds = imageDatastore(IMAGEDir, ...
'FileExtensions','.mat','ReadFcn', volReader);
% labelReader = @(x) matread(x);
matFileDir = fullfile('C:\Users\Akmal\Desktop\NEW 3D U NET\LabelsTr');
classNames = ["background", "tumor"];
pixelLabelID = [0 1];
% pxds = (LabelDirr,classNames,pixelLabelID, ...
% 'FileExtensions','.mat','ReadFcn',labelReader);
pxds = pixelLabelDatastore(matFileDir,classNames,pixelLabelID, ...
'FileExtensions','.mat','ReadFcn',@matRead);
volume = preview(volds);
label = preview(pxds);
up1 = uipanel;
h = labelvolshow(label, volume, 'Parent', up1);
h.CameraPosition = [4 2 -3.5];
h.LabelVisibility(1) = 0;
h.VolumeThreshold = 0.5;
volumeViewer(volume, label)
patchSize = [128 128 64];
patchPerImage = 16;
miniBatchSize = 8;
patchds = randomPatchExtractionDatastore(volds,pxds,patchSize, ...
'PatchesPerImage',patchPerImage);
patchds.MiniBatchSize = miniBatchSize;
%% AUGMENT DATA FOR TRAINING
dsTrain = transform(patchds,@augment3dPatch);
volLocVal = fullfile('C:\Users\Akmal\Desktop\NEW 3D U NET\imagesVal');
voldsVal = imageDatastore(volLocVal, ...
'FileExtensions','.mat','ReadFcn',volReader);
lblLocVal = fullfile('C:\Users\Akmal\Desktop\NEW 3D U NET\labelsVal');
pxdsVal = pixelLabelDatastore(lblLocVal,classNames,pixelLabelID, ...
'FileExtensions','.mat','ReadFcn',volReader);
dsVal = randomPatchExtractionDatastore(voldsVal,pxdsVal,patchSize, ...
'PatchesPerImage',patchPerImage);
dsVal.MiniBatchSize = miniBatchSize;
%% AUGMENT DATA FOR VALIDATION
dsVal = transform(patchds,@augment3dPatch);
inputSize = [128 128 64];
numClasses = 2;
encoderDepth = 2;
lgraph = unet3dLayers(inputSize,numClasses,'EncoderDepth',encoderDepth,'NumFirstEncoderFilters',16)
figure,plot(lgraph);
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采纳的回答
Walter Roberson
2023-2-26
But I dont know how to find the addition data after augment? Because I checked in workspace but not found.
Augmented data is generated internally and is not stored after it is used.If you need it then you can use readall()
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更多回答(1 个)
Askic V
2023-2-25
编辑:Askic V
2023-2-25
This is an extract from the documentation:
% transform Create a new datastore that applies a function to the
% data read from all input datastores.
%
% DSNEW = transform(DS, transformFcn) transforms an input
% Datastore, DS, given an input function, transformFcn. The
% transform function has the syntax:
%
% dataOut = FCN(dataIn);
%
% where FCN is a function that takes the dataIn returned by
% read of DS and returns a modified form of that data,
% dataOut.
In your case the new datastorage after augmenting will be dsTrain
How you can inspect the newdata depends on what transform function do.
For example, this is a simple case of image resizing as transformFcn
imds = imageDatastore('peppers.png');
img1 = read(imds); % reads theimage
subplot(211)
imshow(img1)
newDS = transform(imds,@(x) imresize(x, [120, 120]));
imgOut = read(newDS);
subplot(212)
imshow(imgOut);
whos
As you can see, I need to know how to read the data behind, because datastore is just a pointer to location where the data is.
I hope this example will help you figuring out how exactly to inspect your data.
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