Neuroimaging
91 items from npacore/awesome-neuroimaging ★51
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UK Biobank ukbiobank.ac.uk
A large-scale biomedical database and research resource with 500,000 research participants.
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neurostars neurostars.org
General neuroimaging discuss form. fmriprep suggested Q&A site.
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OpenNeuro openneuro.org
A free and open platform for validating and sharing BIDS-compliant MRI, PET, MEG, EEG, and iEEG data.
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SPM fil.ion.ucl.ac.uk
Statistical Parametric Mapping refers to the construction and assessment of spatially extended statistical processes used to test hypotheses about functional imaging data.
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Andy's Brain Blog andysbrainblog.com
Tutorials and videos about neuroimaging analysis from start to finish in all the major software packages (AFNI, SPM, and FSL).
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XNAT xnat.org
An extensible open-source imaging informatics software platform dedicated to imaging-based research.
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XCP-D xcp-d.readthedocs.io
Post-processing and noise regression pipeline picks up right where fMRIprep ends.
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templateflow templateflow.org
A modular, version-controlled resource that allows researchers to use templates "off-the-shelf" and share new ones.
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mri-watershed surfer.nmr.mgh.harvard.edu
Part of the Freesurfer pipeline.
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freeview surfer.nmr.mgh.harvard.edu
Surface and volumetric image viewer in Freesurfer suit. Uses the QT toolkit.
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ANTs stnava.github.io
Advanced Normalization Tools includes probabilistic tissue segmentation and machine learning methods based on expert labeled data to order to maximize reliability and consistency of multiple modality image segmentation.
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gdcm sourceforge.net
Grassroots DICOM is a C++ library and CLI tool for DICOM medical files.
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Qu|Nex qunex.yale.edu
The Quantitative Neuroimaging Environment & Toolbox (QuNex) is an open-source software suite that collectively supports an extensible framework for data organization, preprocessing, quality assurance, and analyses across neuroimaging modalities.
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qsiprep qsiprep.readthedocs.io
Configures pipelines for processing diffusion-weighted MRI (dMRI) data.
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QMENTA qmenta.com
The all in one imaging platform for your clinical trial.
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pydicom pydicom.github.io
Python package and cli tool for inspecting, modifying, and creating DICOM files.
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osirix osirix-viewer.com
DICOM database organizer and viewer.
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ROBEX nitrc.org
Robust Brain Extraction without parameter tweaking.
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mricron nitrc.org
Volumetric viewer that works on windows.
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NITRC nitrc.org
NeuroImaging Tools & Resources Collaboratory library of neuroinformatics software and data.
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nipy nipy.org
Includes nibabel, nipype, and nilearn.
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U of A: Neuroimaging Core Documentation neuroimaging-core-docs.readthedocs.io
Documentation for approaches used and/or developed by the neuroimaging core at the University of Arizona.
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NDA nda.nih.gov
National Institute of Mental Health Data Archive (NDA) makes available human subjects data collected from hundreds of research projects across many scientific domains.
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NCANDA ncanda.org
National Consortium on Alcohol and Neurodevelopment in Adolescence (4000+ MR visits).
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MRIQC mriqc.readthedocs.io
Extracts no-reference IQMs (image quality metrics) from structural (T1w and T2w) and functional MRI (magnetic resonance imaging) data.
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optibet montilab.psych.ucla.edu
Shell script to combine afni and fsl tools for more robust skull stripping in patient populations.
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PNC med.upenn.edu
A population-based sample of over 9500 individuals from the greater Philadelphia area, ages 8-21 years who received medical care at the CHOP network.
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LORIS mcin.ca
Longitudinal Online Research and Imaging System is a web-based data and project management software for neuroimaging research studies.
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CIVET mcin.ca
An image processing pipeline for fully automated volumetric, corticometric, and morphometric analysis of human brain imaging data.
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cbrain mcin.ca
Web-based software that allows neuroimaging researchers to perform computationally intensive analyses on data by connecting them to High-Performance Computing (HPC).
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