Web Content Display

Training and Resources

 

 

 

N4U offers both assisted and non-assisted training to users.

 

 

 

 

 

 

Not-assisted training consists in user-friendly Online tutorials available on this page, and in specific Manuals and other useful explanatory materials that registered users can find into the Science Gateway.

 

 

 

 

 

 

 

 

 

Assisted training consists in Online User Session and In person User Sessions. These sessions will be organized according to the targeted research communities and to users' expertise. A typical User Session foresees the participation of one or more infrastructure experts of the user board and a small group of participants (maximum 10 persons). This way, it is easier to create a friendly conversation. After a short introduction to neuGRID, the user board gives a description of the test tasks and scenarios. Participants are given a simple test procedure with written instructions, as well as a description of usability goals to be considered and criteria for assessing their achievement. Afterwards, a brainstorming session is included and participants will be asked to fill in a survey and to leave their comments.

 

 

 

To access these sessions, it is necessary to register and acquire a certificate. Please visit the How to? section in order to get information about the procedure to require a certificate.

 

 

 

 

Get a first-hand understanding of the N4U available services by following the tutorials-videos available online!

 

 

 

 

N4U Interactive Tutorial

 

The first N4U Interactive Tutorial - platform overview is online!
This is a short tutorial about some of the N4U capabilities, addressing in particular researchers. It starts from the Science Gateway, showing the Desktop Fusion to run workflows, using the LONI pipeline and the BrainBrowser applications.

To perform these yourself, you will need to enter the community and get access to the N4U Science Gateway.

 

 

Virtual Imaging Platform (VIP) Tutorial

 

 

The VIP tutorial  is now online!
VIP is a web platform to facilitate data sharing and access to computing resources for medical image simulation.

VIP can be accessed through the N4U Science Gateway and offers you functionalities to store, share and process files.

 

 

Persistency Service Tutorial

 

 

The Persistency Service tutorial is available online!
The persistency service provides appropriate interfaces for storing the meta-data of datasets (e.g. ADNI datasets) into the "Analysis Base", the major hub for all N4U Information and Analyses services. As such, the persistency service allows those datasets, which are actually stored on the N4U Grid infrastructure (or other similar repositories), become indexed into the analysis base. This way the Analysis Base can offer an integrated medical data analysis environment to optimally exploit neuroscience pipelines, large image datasets and algorithms.

 

 

Analysis Base Querying Web Interface

 

 

The N4U Analysis Base Querying Web Interface tutorial is available online. It facilitates N4U users and services to retrieve information from the N4U Analysis Base, as concern for example N4U datasets clinical variables and image file indexes, searching of pipelines or algorithms etc. The Web Interface of Analysis Base provides two main categories of search options i.e. Explorer and Query Builder. Here, the Explorer provides a view of the data available in Analysis Base and the main Query Builder section provides three further Querying categories/options i.e. Predefined queries, Clinical Variables search and Advanced Search. For user assistance, a FAQ page is also provided containing the instructions for using comparison operators in a query. The N4U analysis base querying interface can be accessed through the N4U Science Gateway.

 

 

 

 

Demo: file transfer and image processing in N4U <-> VIP <-> CBrain

 

 

 

This video demonstrates an interoperability scenario between Neugrid, CBRAIN and VIP platforms. First, a (minc) file is uploaded to Neugrid using the grid browser tool (00:37 to 1:28).  In the backend, this file is synchronized with the CBRAIN platform, where it appears after a few seconds (2:04). CBRAIN is then used to convert this file to Nifti format (2:15 to 3:30). The resulting Nifti file is synchronized to the VIP platform (integrated in the Neugrid portal), where it can be browsed (3:43). VIP can then be used to process this file: an FSL bet processing is executed, on the LSGC resources (3:50 to 4:38) and on the Neugrid resources (4:40 to 6:05). Result files are finally available in Neugrid's grid browser (6:30).