Scalable, searchable and verifiable neuroimaging data exchange platform. Funded by the NIH under grant#U24-NS124027 (PI:@FangQ) 🖥️ Github:https://xitter.cf/t.co/0ZL3tSAJ3H
Joined November 2020
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Here is our manifesto towards open-data sharing
read in details
neurojson.org/wiki/index.cgi…
Here are the 5 guiding principles of @NeuroJSON:
1.Open-data MUST BE provided in "source-code" format
2.Open-data MUST BE human-understandable
3.Diverse data formats do harm to #openscience and #opendata
4. Small is beautiful
5. Metadata is your data
neurojson.org/wiki/index.cgi…
A write up on the overall NeuroJSON platform architecture
read more at
neurojson.org/wiki/index.cgi…
I prepared the below diagram for my @NeuroJSON poster presented at #OpticaBiophotonics24
it is a nice visual on the overall architecture we created at NeuroJSON.io, and deserves further explanations on many of the ideas behind
read more
neurojson.org/wiki/index.cgi…
Here is a video tutorial on how to use #jdata #python module to list, retrieve, query and download @BIDSstandard #neuroimaging datasets
with the new #jdata module, one can now access the rich @BIDSstandard #neuroimaging datasets on NeuroJSON.io via #RESTAPI
see an animated demo to find out how easy it is to query @OpenNeuroOrg datasets, retrieve metadata, filter data, and download data files on-demand
#Python #JData v0.6.0 is only 25kB in size, but it gives one the ability to download/query the 1000+ neuroimaging datasets via #REST-API inside Python
get it today
pip install jdata
pypi.org/project/jdata
Tutorial Part 3
- how to dynamically access/download/cache NeuroJSON.io datasets on @GnuOctave
because #JSONLab is compatible with both @MATLAB and @GnuOctave, exactly the same REST-API access can be done in Octave
here is the 3rd part of the tutorial using Octave
A lightweight and cloud-friendly way to access and process large complex @OpenNeuro @BIDSstandard datasets in @MATLAB and @GnuOctave
- only downloading data files needed "on-demand", and cache the files for local analyses
See our 3-part video tutorials - Part 1 and Part 2
#neuroimaging researchers, we want to show you a cool way to access complex @OpenNeuro @BIDSstandard datasets
No need to download gigabytes of files before starting analysis
You can use our NeuroJSON.io REST-API and #JSONLab to get data on-demand @MATLAB & @GnuOctave
Please fill out a brief google-form and tell us what you think about neuroimaging data sharing🧠💽🤝
neurojson.org/survey/2024-1
your feedback is critical for guiding us in the further developing of NeuroJSON.io - a free data portal and search engine.
I'd like to invite folks doing research in #neuroimaging,#fnirs,#biophotonics and #datascience to participate our first @NeuroJSON community survey
neurojson.org/survey/2024-1
@oostenvr @fNIRS_org @BIDSstandard @GuiomarNiso
@furranko @yarikoptic @ReproNim @NeuroFedora @andreashorn_
make @BIDSstandard dataset_description.json, guide by real-time validation using JSON schema
check this out
we made a @BIDSstandard dataset_description.json creator⚙️,editor✏️ and validator✅
neurojson.org/Create/dataset…
we use @jsonschema to verify user inputs follow the recommended formats, making it easy for future data harmonization
@NeuroJSON @OpenNeuroOrg @datalad
NeuroJSON.io is a "document-store" for neuroimaging data.
That means every data resource we host can be accessed universally using URL-based #REST APIs.
check out how easy it is load datasets in #Python or @MATLAB
All datasets on NeuroJSON.io are stored in ubiquitously supported #JSON format and can be universally accessed in nearly all environments using URL based #RESTful-APIs
here is a tutorial how to directly load datasets from NeuroJSON.io in #Python and @MATLAB
Our imaging metadata extractor is especially optimized towards @BIDSstandard datasets, this helps users navigate across the comprehensive @OpenNeuroOrg datasets with ease.
Here is a video walk-through on how to dive into @OpenNeuroOrg datasets, and use the in-browser rendering tools to preview 3-D imaging volumes, mesh objects, and more
if you want to take a look, head this way
👇
neurojson.org/db/openneuro
We have developed automated metadata extraction, distillation and aggregation processes by taking advantage of modern #NoSQL database technologies.
This enables flexible and fast search across vast numbers of neuroimaging datasets.
Our @CouchDB backend is highly scalable.
A key area that @NeuroJSON and neurojson.io is hoping to facilitate is the "findability" of free datasets.
This is achieved thank to modern #NoSQL databases.
Our metadata are hosted in an #opensource @CouchDB, offering many ways to extract and search #metadata
One can directly render 3-D/4-D imaging data inside browser before downloading data from NeuroJSON.io
checkout the below screencast
More on data preview functions in neurojson.io:
you can preview 1-D/2-D single data, 3-D structural MRI and even 4-D fMRI time series in the NeuroJSON.io web based interface
We use @Threejs library for fast rendering.
try this
neurojson.org/db/fieldtrip(a…
We have a new data sharing portal, check out the tutorial at
neurojson.org/Doc/Start/User
#neuroimaging and #neuroscience peeps, we are extremely excited to announce a new service to help you navigate across growing public neuroimaging datasets, especially @BIDSstandard datasets!
neurojson.io
you can search over 38000 subjects and 1000 datasets @NeuroJSON
#NeuroJSON Project is alive! neurojson.org
We are in a mission to simplify scientific/#neuroimaging data storage/exchange/reuse/integration by using #JSON as the interchange format,enabling automation,validation, db&more
@FangQ @fieldtriptoolbx @BIDSstandard #OpenJData
ALT NeuroJSON project sets an ambitious goal of eliminating all file formats! By doing so, we can eventually lift the burdens of supporting specific/diverse file formats from software developers and eventually make data files of all kinds to be human-readable, easily parsable and reusable. NeuroJSON project will be building upon a series of standardized, widely supported, and scalable technologies, including JSON, OpenJData specifications, JSON Schema and NoSQL Database. It is one of the first applications of the OpenJData project - where the JSON-based scientific data annotations and application-specific file schemas are standardized.