Documentation

Release:0.6.0 Date:August 19, 2012, 16:08 PDT

Previous versions: 0.5.3 0.4.1

Guides

User User Guide Download and install Tutorial : Interfaces Interface caching Tutorial : Workflows Using Nipype Plugins Configuration File Debugging Nipype Workflows DataGrabber and DataSink explained The Function Interface MapNode, iterfield, and iterables explained Model Specification for First Level fMRI Analysis Changes in Nipype

Developer API caching.memory interfaces.base interfaces.matlab pipeline.engine Developer Guide Interface Specifications How to wrap a command line tool How to wrap a MATLAB script How to wrap a Python script Working with nipype source code Architecture (discussions from 2009)

Interfaces, Workflows and Examples

Workflows workflows.dmri.camino.connectivity_mapping workflows.dmri.camino.diffusion workflows.dmri.camino.group_connectivity workflows.dmri.connectivity.group_connectivity workflows.dmri.connectivity.nx workflows.dmri.fsl.dti workflows.dmri.fsl.tbss workflows.dmri.mrtrix.connectivity_mapping workflows.dmri.mrtrix.diffusion workflows.dmri.mrtrix.group_connectivity workflows.fmri.fsl.estimate workflows.fmri.fsl.preprocess workflows.fmri.spm.preprocess workflows.misc.utils workflows.rsfmri.fsl.resting workflows.smri.freesurfer.bem workflows.smri.freesurfer.utils Examples dMRI: Camino, DTI dMRI: Connectivity - Camino, CMTK, FreeSurfer dMRI: Connectivity - MRtrix, CMTK, FreeSurfer dMRI: DTI - Diffusion Toolkit, FSL dMRI: HARDI - Diffusion Toolkit, FSL dMRI [DTI, FSL] dMRI: Group connectivity - Camino, FSL, FreeSurfer dMRI: Group connectivity - MRtrix, FSL, FreeSurfer dMRI: DTI - MRtrix, FSL dMRI: TBSS on NKI RS data fMRI: surface smooth - FreeSurfer, SPM fMRI: FSL fMRI: FEEDS - FSL fMRI: FSL reuse workflows fMRI: NiPy GLM, SPM fMRI: OpenfMRI.org data, FSL fMRI: Coregistration - Slicer, BRAINS fMRI: SPM, FSL fMRI: SPM Auditory dataset fMRI: DARTEL, SPM fMRI: Famous vs non-famous faces, SPM fMRI: SPM nested workflows HOWTO: Using caching without using Workflow rsfMRI: FSL - CSF regressed rsfMRI: FSL, Nipype, tCompCorr Paper: Smoothing comparison sMRI: FreeSurfer sMRI: Regional Tessellation and Surface Smoothing Workflow from scratch Workshop: Dartmouth College 2010

Interfaces algorithms.misc algorithms.modelgen algorithms.rapidart interfaces.afni.preprocess interfaces.ants.coregister interfaces.ants.normalize interfaces.ants.preprocess interfaces.ants.segment interfaces.ants.utils interfaces.camino.connectivity interfaces.camino.convert interfaces.camino.dti interfaces.camino2trackvis.convert interfaces.cmtk.cmtk interfaces.cmtk.convert interfaces.cmtk.nbs interfaces.cmtk.nx interfaces.cmtk.parcellation interfaces.dcm2nii interfaces.diffusion_toolkit.dti interfaces.diffusion_toolkit.odf interfaces.diffusion_toolkit.postproc interfaces.dipy.tracks interfaces.dynamic_slicer interfaces.freesurfer.model interfaces.freesurfer.preprocess interfaces.freesurfer.utils interfaces.fsl.dti interfaces.fsl.maths interfaces.fsl.model interfaces.fsl.preprocess interfaces.fsl.utils interfaces.io interfaces.mne.base interfaces.mrtrix.convert interfaces.mrtrix.preprocess interfaces.mrtrix.tensors interfaces.mrtrix.tracking interfaces.nipy.model interfaces.nipy.preprocess interfaces.nipy.utils interfaces.nitime.analysis interfaces.slicer.base interfaces.slicer.converters interfaces.slicer.diffusion.denoising interfaces.slicer.diffusion.gtract interfaces.slicer.diffusion.utilities interfaces.slicer.filtering.arithmetic interfaces.slicer.filtering.checkerboard interfaces.slicer.filtering.denoising interfaces.slicer.legacy.diffusion.denoising interfaces.slicer.legacy.registration interfaces.slicer.legacy.work interfaces.slicer.quantification interfaces.slicer.registration interfaces.slicer.segmentation.confidenceconnected interfaces.slicer.segmentation.specialized interfaces.spm.model interfaces.spm.preprocess interfaces.spm.utils interfaces.utility