SORTED

SORTED: A curated collection of interesting ideas, tools, and resources in neuroscience, data management, and data science, all in the spirit of Open Science. Additionally, it includes interesting miscellaneous links related to AI tools and productivity.

<div id="top"></div>

Open Data Science

Data Repositories (suitable for neuroimaging datasets)

• OpenNeuro: A platform for sharing BIDS-compliant MRI, PET, MEG, and EEG data.
• OpenNeuro PET: A specialized repository for BIDS-compliant PET data.
• NeuroVault: A repository for unthresholded statistical maps, parcellations, and atlases from MRI and PET studies.
• BossDB: A volumetric database for 3D and 4D neuroscience data.
• GigaDB: Hosts over 2201 discoverable, trackable, and citable datasets with DOIs for public download and use.
• Harvard Dataverse: A repository for research data across all disciplines.
• Dryad: An open data publishing platform for a wide range of research data.
• GIN: A modern research data management platform for neuroscience.
• Zenodo: A general-purpose open data repository.
• NeMO: A data repository focused on multi-omic data from brain research projects.
• DABI: A shared repository for invasive neurophysiology data from the NIH BRAIN Initiative.

Journals (for Data Notes)

• Data in Brief
• Gigascience
• Scientific Data
• Frontiers in Big Data
• Journal of Open Research Software

Additional Resources:

• Open Science Framework: A platform for sharing and collaborating on scientific research.
• Machine Learning Datasets: A comprehensive list of machine learning datasets from various sources.
• Awesome Neuroscience: A curated list of neuroscience libraries, software, and resources.
• Open Computational Neuroscience Resources: A collection of open computational neuroscience resources.
• Open Science Resources: A collection of open science tools, datasets, and meta-resources.
• OtherLists: A list of other lists that collect and curate resources.

<p align="right">(<a href="#top">back to top</a>)</p>

Miscellaneous for Researchers

General tools

• BIDS: Brain Imaging Data Structure; simple and intuitive way to organize and describe neuroimaging and behavioral data.
• Protocols.io: Science methods, assays, clinical trials, operational procedures and checklists for keeping your protocols up do date as recommended by Good Laboratory Practice (GLP) and Good Manufacturing Practice (GMP).
• Sample Consent Forms for neuroimaging research (EN/DE) | The Open Brain Consent: An international initiative that aims to provide researchers in the brain imaging community with information about data sharing options and tools.
• DataLad: A free and open source distributed data management system.
• ADDI + AD Workbench: Alzheimer's Disease Data Initiative; "a free data sharing platform, data science tools, funding opportunities, and global collaborations, ADDI is advancing scientific breakthroughs and accelerating progress towards new treatments and cures for AD and related dementias".
• The Human Protein Atlas: "The Human Protein Atlas is a Swedish-based program initiated in 2003 with the aim to map all the human proteins in cells, tissues, and organs using an integration of various omics technologies, including antibody-based imaging, mass spectrometry-based proteomics, transcriptomics, and systems biology".
• Most Wiedzy/ Bridge of Knowledge: A Polish-based system with collection of publications, studies, projects and a lot of other types of resources from a number of different subject areas (open-access).
• Journal Citation Reports: "The world's leading journals and publisher-neutral data".

Coding/ Software

• Dask: Parallel computing with Python.
• Docker: OS-level virtualization to deliver software in packages called containers.
• Statistics in R: Guidelines for ANOVA in R.

Neuroscience

• fMRIPrep: A preprocessing pipeline for task-based and resting-state fMRI data.
• Neurosynth: A platform for large-scale, automated synthesis of functional magnetic resonance imaging (fMRI) data.
• BrainMap: A database of published functional and structural neuroimaging experiments with coordinate-based results (x,y,z) in Talairach or MNI space.
• NEMAR: An open access data, tools, and compute resource for assessing and processing human NeuroElectroMagnetic data shared by its authors thru OpenNeuro.
• ReproNim: ReproNim delivers a reproducible analysis framework.
• NiMARE: A Python package for neuroimaging meta-analyses (Neuroimaging Meta-Analysis Research Environment).
• BrainIAK: Advanced fMRI analyses in Python, optimized for speed under the hood with MPI, Cython, and C++.
• BrainAge, brainageR: Brain-age models (brain-predicted age value from a raw T1-weighted MRI scans).
• SPAMRI: A MATLAB Toolbox for Surface-Based Processing and Analysis of Magnetic Resonance Imaging.
• ENIGMA toolbox: Python/MATLAB based. Cortical and subcortical visualization tools, Preprocessed micro- and macroscale data, Multiscale analytical workflows, 100+ ENIGMA-derived statistical maps.

Fellowships & Grants

• Marie Skłodowska-Curie Actions: Fellowships for researchers.
• EMBO Fellowships: Fellowships for postdoctoral researchers in the life sciences.
• HFSP Fellowships: Fellowships for interdisciplinary research in the life sciences.
• Traveling Fellowships, The Company of Biologists: Funding for travel to undertake collaborative research.
• NIH Grants: Information on grants provided by the National Institutes of Health.
• European Research Council Grants: Funding opportunities from the ERC.
• ReproNim/INCF Training Fellowship

Learning

• Neuroscience Tutorials: Tutorials on various neuroscience topics.
• NeuroStars: A forum for discussing neuroscience research and tools.
• ReproNim Statistics Module: Statistical basis for neuroimaging analyses: the basics / Effect size and variation of effect sizes in brain imaging / P-values and their issues / Statistical power in neuroimaging and statistical reproducibility / The positive Predictive Value / Cultural and psychological issues
• DataCamp
• Seeing Theory: A simple introduction to statistics and probability through the use of interactive visualizations (Brown University).

Summer Schools

• Neuromatch Academy: An online summer school for computational neuroscience.
• Google Summer of Code: A global, online program focused on bringing new contributors into open source software development.
• Neurohackademy: A summer school in neuroiming & data science, held at the University of Washington eScience Institute.

Initiatives, research groups, associations, labs, companies

• ENIGMA: The ENIGMA Consortium brings together researchers in imaging genomics to understand brain structure, function, and disease, based on brain imaging and genetic data.
• The EuroLaD-EEG consortium: towards a global EEG platform for dementia (*more information is not yet available).
• BrainArt SIG: "The scope of the Brain–Art SIG is to promote the exchange between Art & Science by fostering the dialogue between artists and members of the OHBM community." | Paper
• DeepMind: "We’re a team of scientists, engineers, ethicists and more, committed to solving intelligence, to advance science and benefit humanity".
• The Center for Brains, Minds and Machines
• NeuroDataScience - ORIGAMI lab
• Opium: Polish National Instit