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Mapping Data To Organ Scaffold
Welcome to SPARC
What is SPARC?
The SPARC Dataset
Why Choose SPARC?
SPARC is an Open Data Repository
Autonomic Neuroscience : Basic and Clinical
Pricing Guide
Publishing Costs for the SPARC Portal
DMSP Budgeting for NIH Grant Proposals
Submit to SPARC
Is SPARC HIPAA Compliant?
What is ORCiD?
Sustainable SPARC
Data Availability
What Can I Do with SPARC?
Finding and Using Data
SPARC Portal Overview
SPARC Infrastructure
SPARC Portal Data Repository Structure
APIs and Open Access Code
SPARC Portal Schema
SPARC Systems Status
Data & Models
Navigating Datasets on SPARC
Anatomical Models: Organ Scaffolds
Search
Faceted Browse
Viewers
Gallery Viewer
Image Viewer
Plot Viewer
Scaffold Viewer
Segmentation Viewer
Simulation Viewer
SPARC dataset (SDS) Viewer
Video Viewer
Using Data and Resources
SPARC Open Dataset Structure
Public Datasets Download and Access
Embargoed Datasets
o²S²PARC Services
o²S²PARC Simulations
Citing Datasets & Resources
Citing Datasets and Models published on SPARC in Manuscripts
Citing SPARC Portal resources
Citing a Dataset from the Manifest JSON file
SPARC Python Client
SPARC Portal Login
Portal Development
SPARC Portal Known Issues
Supported Browsers
SPARC Apps
SPARC Apps Overview
Maps
Flatmap Viewer
Multiple Views in Maps
Functional Connectivity Maps
3D Whole Body Map
Integrated Maps Viewer
Sidebar in Maps
Find datasets from the sidebar
o²S²PARC
Key o²S²PARC features
SCKANNER
SPARC Dashboard
Contributing Data & Models
Submission Overview
Getting Ready to Submit
Defining your SPARC Dataset or Model
Formatting SPARC Datasets
File Formats Accepted by SPARC
SPARC Workspace on Pennsieve
Best Practices
Guidelines for Effective SPARC Dataset Titles and Descriptions
Subjects, Samples, and Identifiers
Protocol Best Practices
Data Upload Best Practices
SPARC/dbGaP Quick-Reference
Submit: Submission Walkthrough
Create Your Protocol
Prepare Your Metadata Files
Computational Models
Publishing a Flatmap as a SPARC Dataset
Publishing Generic Organ Scaffold as a SPARC Dataset
Publishing Scaffold Maps as a SPARC Dataset
Link the same subjects across multiple datasets
Organize Your Files
Upload Your Data
Share Your Dataset with Curation
FAQs: SPARC Data Submission
Data Upload FAQs
Request to Publish
Tools & Resources
Tools & Resources Overview
Flatmap Resources
Map maker
Flatmap Server
Flatmap Sources
Flatmap Viewer
Flatmap Vuer
Map-Tools
Scaffold Vuer
Map Vuer
Image Segmentation
FAIR Image Segmentation in MBF Bioscience Software
Connecting MBF Bioscience Software to the Pennsieve Platform
Demo of Use of Segmentation Conversion Tools for Scaffold Mapping
Map Annotation Tool
Microfile+
Scaffold Mapping Tools
Installation Guide
Creating a Skeleton Dataset Structure
Annotating in the Scaffold Mapping Tool
Adding Provenance
Adding Fiducial Markers and Groups
Organ Scaffold Reuse/Export
SciCrunch Vocabulary Services
SCKAN
Accessing SCKAN
SODA: Software to Organize Data Automatically
Learning Center
Learning Center Overview
DRC Open Office Hours
SPARC Portal Walkthrough
SPARC Tutorials
Discovering and reusing connectivity knowledge in flatmaps
Using a Jupyter Notebook with SPARC data
Mapping Image Data Demonstration Overview
Scaffold Mapping Tools: Mapping Image Data
Scaffold Mapping Tools: Mapping Physiological Data
Scaffold Mapping Tools: Mapping Image Data From Flat Preparation
Scaffold Mapping Tools: Inserting Organs In Whole Body Scaffold
SPARC Portal Map Annotation Tool
Using sparc.client for data movement in SPARC
Download public data, scaffolds and run computations
SCKANNER Tutorial
'Model Intelligence' HyperTools on o²S²PARC
Running a MetaModeling Pipeline On o²S²PARC
Introduction To CAD Modeling On o²S²PARC
Running ASCENT On o²S²PARC
Running a Cardiovascular System Model on o²S²PARC from the SPARC Portal
Tutorial Archive
Scaffold Mapping Tools: Mapping Image Data v0.17.4
Scaffold Mapping Tools: Mapping Image Data v0.19.1
Scaffold Mapping Tools: Mapping Image Data v0.21.4
Scaffold Mapping Tools: Mapping Physiological Data v0.19.1
Scaffold Mapping Tools: Mapping Image Data From Flat Preparation v0.19.1
SPARC Webinars
SPARC YouTube Channel
Intro to the New SPARC 2.0 Dataset Structure
Using AWS to Access Public Datasets
Access o²S²PARC from the SPARC Portal
Running JupyterLabs on SPARC Resources
Mapping Data To Organ Scaffold
Community & Collaborations
The SPARC Community
HEAL Initiative data on SPARC
What’s Your SPARC Story?
Projects
SPARC Plug Newsletter Archive
SPARC Plug Summer 2025
SPARC Plug Spring 2025
SPARC Plug Winter 2025
SPARC Plug Autumn 2024
SPARC Plug Summer 2024
SPARC Plug Spring 2024
SPARC Plug Winter 2024
SPARC Plug Autumn 2023
SPARC Plug Summer 2023
SPARC Plug Spring 2023
SPARC is now an Open Data Repository
SPARC Plug Autumn 2022
SPARC hits major dataset milestone
SPARC Plug Spring 2022
SPARC Plug Winter 2022
SPARC Plug Summer 2021
SPARC Plug Winter 2021
SPARC Plug Autumn 2020
Promotional Resources
Governance & Standards
Governance
SPARC DRC Operation
SPARC Anatomical Working Group (SAWG)
Steering Committee
SPARC Data and Resource Center Structure
Data Coordination (DAT-Core)
Curation and Knowledge Management (K-Core)
MAP Synthesis (MAP-Core)
Modeling and Simulation (SIM-Core)
In Silico Studies Roadmap
Policies
Changes to Published Datasets Policy
List of SPARC Datasets Removed from the SPARC Portal
Data Persistence Policy
Embargoed Data Use Agreement
Material Sharing Policy
Notice Regarding Repository Review EO 14168
Portal Privacy Policy
Terms of Service
Standards
SPARC is FAIR
SPARC and Re3 Data
Standards Process
SPARC Data Structure (SDS)
SDS: Structured Folders and Metadata Files
SDS Versions
Metadata Standards
Minimal Information Standard (MIS)
cMIS
Optical Microscopy Imaging
Naming Requirements
Ontologies
Protocols
Consortia Resources
SPARC Supported Consortia
NIH PRECISION Human Pain Network Resource Page
NIH RE-JOIN Resource Page
SPARC Resources List
Mapping Data To Organ Scaffold
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