Package: neuro-pypes
# neuro_pypes[![Build Status](https://travis-ci.org/Neurita/pypes.svg?branch=master)](https://travis-ci.org/Neurita/pypes)
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[![DOI](https://zenodo.org/badge/46623736.svg)](https://zenodo.org/badge/latestdoi/46623736)Reusable neuroimaging pipelines using [nipype](http://nipype.readthedocs.io/) and state-of-the-art
neuroimaging preprocessing software.The objectives of this projects are:easy-to-use, complete, reusable, and configurable pre-processing pipelines, andhigh-quality results with the minimum manual intervention in the images.## DocumentationPlease have a look at the documentation [here](http://neuro-pypes.readthedocs.io).## CitationIf you use Pypes please cite it:` Alexandre M. Savio, Michael Schutte, Manuel Graña and Igor Yakushev Pypes: Workflows for Processing Multimodal Neuroimaging Data Front. Neuroinform., April 2017, vol 11, 2017, pages 25 issn:1662-5196doi: 10.3389/finf.2017.00025 `[https://doi.org/10.3389/fninf.2017.00025](https://doi.org/10.3389/fninf.2017.00025)…or the BibTeX:` @ARTICLE{10.3389/fninf.2017.00025,AUTHOR={Savio,Alexandre M. and Schutte, Michael and Graña, Manuel and Yakushev, Igor},TITLE={Pypes:Workflows for Processing Multimodal Neuroimaging Data},JOURNAL={Frontiersin Neuroinformatics},VOLUME={11},PAGES={25},YEAR={2017},URL={http://journal.frontiersin.org/article/10.3389/fninf.2017.00025},DOI={10.3389/fninf.2017.00025},ISSN={1662-5196}} `Also consider citing [Nipype](http://nipype.readthedocs.io) and all the other open source tools you use.## LicenseLicensed under the Apache License, Version 2.0.ChangelogVersion 1.1.2 (16.04.2018)### Features:Add–extraparameter tonitap motionfor extra subject metadata.Bump nipype version to 1.0.2. Few fixes included.Version 1.1.1 (08.03.2018)### Bugfixes:Fix wrong import in cli/cli.py file.Fix bugs innitap plotcommand.Version 1.1.0 (01.03.2018)### Features:AddnitapCLI withplotandmotionsubcommands.### Docs:Added a new section for the command line interface.### Code changes:Changed all import paths to absolute paths.Line width changed to 120.Many code style changes towards automatised lint checks.Version 1.0.1Bug fix: some wrong import names with the module name change.Bug fix: added missing requirements.Version 1.0.0API break: Change module name frompypestoneuro_pypes.Documentation update.Version 0.3.5Fix connection naming in the fMRI pipeline atlas output.Version 0.3.4Fix connection naming in the fMRI pipeline atlas output.Version 0.3.3Fix output renaming in SPM+DiReCT pipeline.Addblack_bgparameter to multi slices plotting functions.Add motion_stats_sheet to fmri utils.General fix on import ordering which was raising errors from new Nipype.Version 0.3.2Add atlas warping to fMRI pipeline.Fixes in fMRI pipeline.Version 0.3 - 0.3.1Add motion statistics measures in DTI pipeline.Improve documentation.Add SPM+DiReCT option to anatomical preprocessing.Addinvokeexamples in tasks.py.Style and bug fixes.Fix imports for latestnipypeversion.Addplot_ortho_slicesfunction tonilearninterface.Version 0.2.0 - 0.2.1Add mkdocs documentation and readthedocs setup.Add registration options for PET and fMRI. Add options for this in config.Add group template for fMRI and PET pipelines.Add brain_mask output to anatomical MR pipeline.Rename/re-structure fMRI pipeline and files.Improve PET output file namings.Add settings for Camino in config.Fix bug in _get_n_slices in slicetime_params.Bug fixes.