provenance for neuroimaging data
Project description
provenance for neuroimaging data
See the full online documentation (or pdf) and PyPi package and follow niprov on twitter!
To inspect image files, install nibabel,mne and/or pydicom.
A list with all provenance attributes collected can be found here.
Commandline Usage
Look for image files below the current directory, inspect them and store the obtained provenance metadata:
provenance discover .
Run a transformation command and log it as provenance for the new file:
provenance record mcflirt -in t1flip_all_orig -out t1all_reg -refvol 0
Alternatively, log the provenance after running the command:
provenance log 'motion correction' --new fmri-3dmc.nii --parent fmri.nii
Publish provenance of known files for subject ‘John Doe’ as an html file:
provenance report --subject "John Doe" --html
Python API
import niprov
niprov.discover('.')
analysispackage.correctmotion(input='JD-fmri.nii', output='JD-fmri-3dmc.nii')
niprov.log('JD-fmri.nii', 'motion correction', ['JD-fmri-3dmc.nii'])
niprov.record('mcflirt -in t1flip_all_orig -out t1all_reg -refvol 0')
files = niprov.report(forSubject='John Doe')
Project details
Release history Release notifications | RSS feed
Download files
Download the file for your platform. If you're not sure which to choose, learn more about installing packages.
Source Distribution
niprov-0.3.tar.gz
(214.3 kB
view hashes)