Magnetic Resonance Spectroscopy (MRS) data processing in the time-domain with jMRUI
16-18 March, 2020 – Brno, Czech Republic
The H2020-MSCA-ITN INSPiRE-MED European organizes the course “MRS data processing in the time-domain with jMRUI” as a training event for the early-stage researchers of the INSPiRE-MED project funded by a Marie Sklodowska-Curie action grant of the European Union Horizon 2020 research and innovation programme.
We also offer 20 free places in the jMRUI training course that will be held from Monday, March 16 to Wednesday, March 18, 2020 in Brno, Czech Republic.
If you wish to attend the course, please register as soon as possible because, once the course capacity is filled, the registration will be closed. We will confirm your registration and give you full information promptly after you register. If you register after the capacity has been filled, you will be notified.
In this course you will learn how to apply the many algorithms available in jMRUI to process biomedical MRS data in the time-domain. For instance, you will apply HLSVD and related tools to filter unwanted signals, e.g. to remove a large residual water peak; and you will use fitting tools like AMARES and QUEST to quantitate the metabolites in the spectrum. One session will be devoted to learn and practice the use of NMRSCOPE-B to simulate the metabolite spectra required to build a basis-set for quantitation with QUEST/AQSES, and two additional sessions will be dedicated to master the use of the advanced features available in NMRSCOPE-B. Additional sessions will teach you how to code plug-ins to extend and customize the jMRUI software.
At the end of this three day training course, you should be able to use the tools available in jMRUI to process biomedical MRS data in the time-domain and to assess the results obtained. Additionally, you will have a basic knowledge of the concepts involved in signal processing and fitting in general, and in time-domain processing in particular, so that you can keep up with future developments in this field applied to MRS processing.
This course is aimed at PhD students or junior postdocs researchers working on Magnetic Resonance Spectroscopy (MRS) and interested in learning how to apply time-domain algorithms to process MRS data, in particular biomedical, preclinical and clinical MRS data.
We have two requests for all participants member and non-members of the INSPiRE-MED EU project:
- Bring your own laptop (preferably with Windows, on-site installation support and hands on plug-ins will be provided for Windows). Keep in mind that this is mostly a practical course on how to use the jMRUI software and that the best way to learn it is to use it.
- It is highly recommended to license, download and install jMRUI 6.0 beta in advance (or at least to try so). Although we have allocated time early on the first day to install the software, it will be more productive if you do it at home before the course.
Due to space constrains, we can only offer 20 free places to non-members of the INSPiRE-MED project. Every registration will be booked subject to the number of places still available, and they will be confirmed by email to participants upon registration.
All course participants (*) are responsible for arranging and paying their own travel and accommodation and meals.
Coffee break refreshments will be provided for free.
(*) INSPiRE-MED members should check their email box for additional instructions.
Programme at a glance
|Day 1 - 16th March||Day 2 - 17th March||Day 3 - 18th March|
jMRUI installation, overview & history
|09:00||Quantifiying with AMARES & AMARES applications||09:00||Hands on plugins|
|10:30||coffee break||10:30||coffee break|
|11:00||Basis set simulation with NMRSCOPE-B||11:00||Quantifiying with QUEST|
|14:00||NMRSCOPE-B advanced usage (I)||13:30||Clinical examination (SV MRS + MRSI) & Monte-Carlo with jMRUI|
|15:30||coffee break||15:30||coffee break|
|16:00||NMRSCOPE-B advanced usage (I)||16:00||Plugins overview & hands on|
A more detailed programme is available on a separate page.
Institute of Scientific Instruments of the Czech Academy of Science
612 64 Brno
This course is funded by the European Union Horizon 2020 Framework Programme for Research and Innovation, through the Marie Skłodowska-Curie actions, with grant agreement No 813120.