A nifti processing tool
Project description
NiftiProcessing
A nifti file processing tool
Under development
This software has NOT been approved for medical analysis/diagnosis. Please use other approved software in for medical use.
Options
positional arguments:
path Path to file
optional arguments:
-h, --help show this help message and exit
--precision {32,64} Sets datatype precision in float32 or 64
--info, -i Outputs .nii file metadata
--plot PLOT, -p PLOT Plots image of 2nd/3rd dimension in .nii file
(Requires MatplotLib)
--align, -a Orients .nii file in MNI152 space
--normalize, -n Normalizes .nii file values within set values
(Default: 0.,1.)
--normalize-lower Lower value for normalization (Default: 0.)
--normalize-upper Lower value for normalization (Default: 0.)
--rotate, -r Rotates .nii file by 90 degress in 1st and 2nd dimension
--output, -o Filename for .nii file generation
(Note: Currently erases orginal metadata)
Usage Examples
# Orients nifti file to MNI152 space
$ niftiprocessing sample.nii.gz -a -o output.nii.gz
# Plot slice 150 with matplotlib
$ niftiprocessing sample.nii.gz -p 150
Actions to implement:
Input
- Single
- Batch (directory)
Tools
- resize
- resize with pad
- resize with crop
- flip
- rotate
- invert
- denoise
- normalize
- align
Information
- scan information
Visualize
- terminal drawing output for orientation
Output
- Single
- Batch (directory)
Project details
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