nipype
nipype copied to clipboard
nipy
Workflows and interfaces for neuroimaging packages
Hey all, I built an in-house PET preprocessing pipeline and would like to update it to support BIDS (and make it available on github). However, I do not think there...
### Summary The mcflirt node crashes when .inputs.stats_imgs = True when using FSL 6.0.5.1:57b01774 because it expects the output filename to be: BASEFILENAME_variance.nii.gz but FSL outputs: BASEFILENAME.nii.gz_variance.nii.gz There is a...
### Summary Converting mosaic dti series with dmc2niix results in a duplicated output ### Actual behavior converted_files output contains twice the generated nifti file ### Expected behavior converted_files should contain...
### Summary I want to pass a `.tsv` file to as input to the `realignment_parameters` argument from `SpecifySPMModel`, but I think I pass it in the wrong format? It's not...
### Summary EDDY current and motion correction of dw data. ### Actual behavior ### Expected behavior ### How to replicate the behavior ### Script/Workflow details ``` eddy = fsl.Eddy(in_file =...
### Summary I have a feature request: It would be nice if it was possible to replace one regex-match with another one from the same input string for the the...
### Summary I am trying to use FAST inputs.other_priors unfortunately it has to be 3 input images and it always gives as a result gray matter, white matter and CSF,...
Goodmorning, I'm having troubles while running Freesurfer mri_convert command using PyCharm. Here's the code: import os import dicom2nifti from nipype.interfaces.freesurfer import MRIConvert from nipype.interfaces.matlab import MatlabCommand MatlabCommand.set_default_paths('/Applications/spm12') os.environ['FREESURFER_HOME'] = '/Applications/freesurfer/7.1.1/'...
Hi, I am experiencing issues running nipype.interfaces.spm in my windows machine. I get "This docstring was not generated by Nipype! " error message when I run the following command. Any...
I am using parametric modulation, using SPM. SPM 12 has an option to switch off the default orthogonolisation of regressors, but it seems that option cannot be set from Nipype....
