What is XNAT-PIC?
Preclinical imaging centers deal with many challenges mostly related to the variety of imaging instrumentation yielding huge volumes of raw data. The current procedures to collect, share and reuse preclinical image data are insufficient, thus revealing an urgent need of standardization in terms of data storage and image processing. XNAT for Preclinical Imaging Centers (XNAT-PIC) has been developed to overcome this limitation by extending XNAT’s basic functionalities to meet the needs of preclinical imaging facilities.
XNAT for Preclinical Imaging Centers (XNAT-PIC) consists of a set of tools built in Python and MATLAB to store, process and share preclinical imaging studies built on top of the XNAT imaging informatics platform.
Who is XNAT-PIC intended for?
XNAT-PIC is inteded for scientists, researchers and data stewards working in the preclinical and biomedical imaging field to support image data management and processing.
Which task can be solved with XNAT-PIC?
XNAT-PIC is a set of tools to support preclinical imaging scientists in their data management and processing needs. The Extensible Neuroimaging Archive Toolkit XNAT is an imaging informatics platform developed by the Neuroinformatics Research Group at the Washington University for the management, storage and analysis of biomedical image data. XNAT is an open-source project that can support a wide range of imaging modalities thanks to its extensibility.
Figure 1. Schematic overview of the XNAT-PIC tool assembly.
XNAT-PIC consists of:
- MRI2DICOM to process Magnetic Resonance (MR) images and convert them from ParaVision® (Bruker, Inc. Billerica, MA) file format to DICOM standard;
- XNAT-PIC Uploader to import and store multimodal DICOM image datasets to XNAT;
- XNAT-PIC Pipelines for analysing single or multiple subjects within the same project in XNAT.
Citation
If you use XNAT-PIC please cite:
- S. Zullino, A. Paglialonga, W. Dastrù, D. L. Longo, S. Aime. XNAT-PIC: Extending XNAT to Preclinical Imaging Centers, 2021. Pre-print: https://arxiv.org/abs/2103.02044
Related pages
More information
Training
Tools and resources on this page
| Tool or resource | Description | Related pages | Registry |
|---|---|---|---|
| MRI2DICOM | a Magnetic Resonance Imaging (MRI) converter from ParaVision® (Bruker, Inc. Billerica, MA) file format to DICOM standard | ||
| XNAT | Open source imaging informatics platform. It facilitates common management, productivity, and quality assurance tasks for imaging and associated data. | TransMed Bioimaging data | |
| XNAT-PIC Pipelines | Analysing of single or multiple subjects within the same project in XNAT | ||
| XNAT-PIC Uploader | Import tool for multimodal DICOM image datasets to XNAT |
Euro-BioImaging / University of Torino