dcm2niix
gdl
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| dcm2niix | gdl | |
|---|---|---|
| 6 | 2 | |
| 807 | 261 | |
| 4.7% | 1.9% | |
| 7.6 | 9.5 | |
| 4 days ago | 7 days ago | |
| C++ | C++ | |
| GNU General Public License v3.0 or later | GNU General Public License v3.0 only |
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dcm2niix
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I have a doubt in brain MRI scan
Keep in mind that DICOM images are always converted to the NIfTI format when dealing with neuroimaging data, so the different software are expecting this image type. You should always keep the original DICOM files in your archive, but convert them to NIfTI and use that as your raw data input. To convert DICOM to NIfTI, you can use a tool like dcm2niix dcm2niix.
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Conversion of DICOM to .nii.gz
When I try to execute the .exe in the link you have provided the program does not run. However, according to this site: https://github.com/rordenlab/dcm2niix! the niix is included in MRIcroGL which I have tried.
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Can somebody help me quantify spatial resolution in CT scans of mice?
The spatial resolution of the scan is typically in the DICOM header, isn't it? Maybe try running the DICOM through something like dcm2niix (https://github.com/rordenlab/dcm2niix) which will convert to a NIFTI formatted image and generate a JSON file from the header. The header support isn't complete, so it might not get things correct from your CT image (or from an animal scanner for that matter), but it's worth a shot. I imagine there are similar tools for CT.
- Full-size 3D print of my brain
- Convert DICOM Slices to Nifti Using Nibabel(Python)
gdl
What are some alternatives?
jpeg-autorotate - 📸 Node module to rotate JPEG images based on EXIF orientation.
h5cpp - C++17 templates between [stl::vector | armadillo | eigen3 | ublas | blitz++] and HDF5 datasets
brainflow - BrainFlow is a library intended to obtain, parse and analyze EEG, EMG, ECG and other kinds of data from biosensors
AlphaPlot - :chart_with_upwards_trend: Application for statistical analysis and data visualization which can generate different types of publication quality 2D and 3D plots with extensive visual customization.
MRIcroGL - v1.2 GLSL volume rendering. Able to view NIfTI, DICOM, MGH, MHD, NRRD, AFNI format images.
OpenSpace - This is the official GitHub repository for OpenSpace: an open source astrovisualization project. For instructions on how to build and run OpenSpace, see the Getting Started Guides on the wiki page at http://docs.openspaceproject.com
DicomToMesh - A command line tool to transform a DICOM volume into a 3d surface mesh (obj, stl or ply). Several mesh processing routines can be enabled, such as mesh reduction, smoothing or cleaning. Works on Linux, OSX and Windows.
allsky - A Raspberry Pi operated Wireless Allsky Camera
simnibs - Simulation of Non-Invasive Brain Stimulation
preCICE - A coupling library for partitioned multi-physics simulations, including, but not restricted to fluid-structure interaction and conjugate heat transfer simulations.
ESP32-targz - 🗜️ An Arduino library to unpack/uncompress tar, gz, and tar.gz files on ESP32 and ESP8266
fips3 - OpenGL-based FITS image viewer