# dMRI preprocessing pipelines ### Pipelines [DESIGNER](https://github.com/NYU-DiffusionMRI/DESIGNER) Paper: https://www.sciencedirect.com/science/article/pii/S1053811918306827 [QSIPREP](https://qsiprep.readthedocs.io/en/latest/) Paper: https://www.nature.com/articles/s41592-021-01185-5 [PreQual](https://github.com/MASILab/PreQual) Paper:https://onlinelibrary.wiley.com/doi/full/10.1002/mrm.28678 [TractoFlow](https://github.com/scilus/tractoflow) Paper: https://www.sciencedirect.com/science/article/pii/S105381192030375X [PyDESIGNER](https://pydesigner.readthedocs.io/en/latest/) (Implementación python del DESIGNER) Hay un BIDs APP con preproc mrtrix3: https://github.com/BIDS-Apps/MRtrix3_connectome (NOTA: Todos los pipelines anteriores incluyen opciones para modelos de microestructura o tractografía [o ambos]) [dMRIPREP](https://www.nipreps.org/dmriprep/) Hay un piepeline de preproc (con mrtrix3 + fsl) en Brainlife.org : https://brainlife.io/app/5a813e52dc4031003b8b36f9 ### Herramientas y stuff Tour de Force paper de preprocesamiento: [What’s new and what’s next in diffusion MRI preprocessing](https://www.sciencedirect.com/science/article/pii/S1053811921011010?via%3Dihub) El tutorial del Dr. concha de preproc en ratas: https://github.com/c13inb/c13inb.github.io/wiki/dwipreproc-rat Tutorial en el Andy's Book: https://andysbrainbook.readthedocs.io/en/latest/MRtrix/MRtrix_Course/MRtrix_04_Preprocessing.html La guia de usuario para EDDY de FSL: http://ftp.nmr.mgh.harvard.edu/pub/dist/freesurfer/tutorial_packages/centos6/fsl_507/doc/wiki/eddy(2f)UsersGuide.html El wraper de mrtrix3 para las herramientas de preproc FSL: https://mrtrix.readthedocs.io/en/dev/reference/commands/dwifslpreproc.html