Bold_signals_roi pipeline¶
This pipeline allows to get plots of the BOLD average signal in severals ROI (defined by AssemblyNet).
This pipeline requires Docker to run AssemblyNetDocker brick
Pipeline insight
Mandatory inputs parameters
- bold (a string representing an existing file)
A functional image (BOLD). An existing file (valid extensions: [.nii, .nii.gz]).
ex. '/home/username/data/raw_data/func.nii'
- anat (a string representing an existing file)
A T1w image. An existing file (valid extensions: [.nii, .nii.gz]).
ex. '/home/username/data/raw_data/T1w.nii'
Optional inputs parameters with default values
- labels_structures (a list of integer, default value is [47, 48])
List of structures labels for which the average signals will be extracted.
The default value is [47, 48], this corresponds to le left and the right hippocampus.
ex. [47, 48]
Outputs parameters:
- out_png_tissues (a string representing a file)
Out png file with a plot of the average signal for each tissues.
ex. '/home/username/data/derived_data/func_extracted_signals_tissues.png'
- out_png_lobes (a string representing a file)
Out png file with a plot of the average signal for each lobes.
ex. '/home/username/data/derived_data/func_extracted_signals_lobes.png'
- out_png_macrostructures (a string representing a file)
Out png file with a plot of the average signal for each macrostructures.
ex. '/home/username/data/derived_data/func_extracted_signals_macrostructures.png'
- out_png_structures (a string representing a file)
Out png file with a plot of the average signal for each structures given in the labels_structures parameter.
ex. '/home/username/data/derived_data/func_extracted_signals_47_48.png'
Useful links: