I have all these Dicom files of some patients brain maps. I sorted them by patient, map, b_value and slice. Every slice of the brain has 15 gradients dicom files, a 'b zero' dicom file, and a 'b_x' isotropic dicom file (which my teacher said it's useless for what I need to do). Now I have to do on them some DTI analysis, since my teacher asked me to convert them in .nii files and correct them with FSL, doing a Eddy current correction, and then I should 'reallign' each of the 15 gradients in every slice to its b_zero. Do you know how I can do this last thing (the 'reallignation') with FSL? Also, should I do the Eddy current correction before or after the reallignation? Thanks in advance!
Related Questions in IMAGE-PROCESSING
- RuntimeError: Given groups=1, weight of size [64, 1, 3, 3], expected input[1, 3, 416, 416] to have 1 channels, but got 3 channels instead
- Unable to open shape_predictor_68_face_landmarks.dat
- When transferring mri t1 to mni152 spaces, the dimensions change and lose information, is that not a problem?
- How to detect the exact boundary of a Sudoku using OpenCV when there are multiple external boundaries?
- Nuke BlinkScript: Why does the convolution kernel scale down the image?
- CV2 Python - image merging based on homography matrix - error in mergeing
- Python pillow library text align center
- Implementing Image Processing for Dimension Measurement in Arduino-based Packaging System
- AI tools for generating clean clipping paths
- efficient way to remove a background from an image in python
- I want to segment an MRI image of the spine and obtain only the vertebrae using Matlab
- Find Gradient Magnitude using skimage.feature.hog module
- AR Image Display Issue
- Using python OpenCV to crop an image based on reference marks
- Python: Generating an image using Multiprocessing freezes
Related Questions in IMAGING
- Image not found error when multiplying images in macro code
- Computer Configuration does not apply after creating a new Windows image
- Why can't I make a vhd that can open in 7zip?
- C++ in Qt6 - Off-centered QPixmap while simulating video playback
- problem with GSAFT (backprojection) algorithm for nearfield image reconstruction on my simple planar array
- 3D slicer medical Imaging software
- How to reconstruct MMW image using electrical field in each direction at Reciever points
- Reduce noise by averaging images coming from x-ray camera (16 bit grayscale)
- How to duplicate all the frames in the same .tif file
- Divide the region of interest into blocks
- I got the error ImportError: cannot import name '_imaging' from 'PIL'
- Medical Imaging with python
- Extract black and white raw image in PDF to jpg and tiff
- Changing the voxel size of nifti files from 1.5 to 2mm
- How to do pixel super-resolution?
Related Questions in MEDICAL
- output and target Tensor size error MONAI
- Grouping events together based on overlapping dates
- Why is my image registration code taking so long to run?
- Counting repeating instances in a REDCap database using R
- Converting Image-Based ECG to numerical form
- Which method can export labelled tiles/patches from original image?
- Ordered and Nested Lists (Letters and Numbers)
- How does medical laboratory analyzer work regarding protocols and communication?
- MONAI (pytorch) def train zero division error
- How to identify brand for specific NDC in Prescrible Rxnorm data file?
- Why is my vector database retrieving irrelevant results?
- Where can i find open medical datasets in HL7/FHIR format?
- SimpleITK copy headers/metadata to align segmentation with image
- How to remove outer line of a binary images?
- How do I make a For-Loop for multiple plots to be saved in R
Related Questions in NEUROSCIENCE
- Filter the EEG signal for specific frequency
- Heterodox use of Deep Learning to find hidden patterns
- model for general artificial intelligence in today's deep-learning and computational neroscience community
- Show GUI when running nrniv?
- Having a neural network output a gaussian distribution rather than one single value?
- Running jnml results in Error: Could not find or load main class org.neuroml.JNeuroML
- speed up bedpost by parallelization
- How to render a 3D brain image in a mayavi plot
- Spark MLLib's Word2Vec cosine similarity greater than 1
- Indexing into a matrix using another matrix within a loop
- Neurophysiology recording MATLAB
- Leaky Integrate and fire neuron model
- Downsampling of fMRI image with FSL
- Mapping two 3D matrices of different sizes to each other
- Custom colors for Desikan-Killiany atlas freesurfer regions
Popular Questions
- How do I undo the most recent local commits in Git?
- How can I remove a specific item from an array in JavaScript?
- How do I delete a Git branch locally and remotely?
- Find all files containing a specific text (string) on Linux?
- How do I revert a Git repository to a previous commit?
- How do I create an HTML button that acts like a link?
- How do I check out a remote Git branch?
- How do I force "git pull" to overwrite local files?
- How do I list all files of a directory?
- How to check whether a string contains a substring in JavaScript?
- How do I redirect to another webpage?
- How can I iterate over rows in a Pandas DataFrame?
- How do I convert a String to an int in Java?
- Does Python have a string 'contains' substring method?
- How do I check if a string contains a specific word?
Popular Tags
Trending Questions
- UIImageView Frame Doesn't Reflect Constraints
- Is it possible to use adb commands to click on a view by finding its ID?
- How to create a new web character symbol recognizable by html/javascript?
- Why isn't my CSS3 animation smooth in Google Chrome (but very smooth on other browsers)?
- Heap Gives Page Fault
- Connect ffmpeg to Visual Studio 2008
- Both Object- and ValueAnimator jumps when Duration is set above API LvL 24
- How to avoid default initialization of objects in std::vector?
- second argument of the command line arguments in a format other than char** argv or char* argv[]
- How to improve efficiency of algorithm which generates next lexicographic permutation?
- Navigating to the another actvity app getting crash in android
- How to read the particular message format in android and store in sqlite database?
- Resetting inventory status after order is cancelled
- Efficiently compute powers of X in SSE/AVX
- Insert into an external database using ajax and php : POST 500 (Internal Server Error)
I'm sorry I can't help you, but you will probably find the answer in the FSL docs: http://fsl.fmrib.ox.ac.uk/fsl/fslwiki/
If you want to use FSL from your own code, try NiPy (Neuroimaging in Python): http://nipy.sourceforge.net/nipype/users/interface_tutorial.html