From 6d91d36bcc6c3e7b0f9ff0f329d38cd2b77c8387 Mon Sep 17 00:00:00 2001 From: Mathieu Boudreau Date: Fri, 4 Oct 2024 21:34:37 -0300 Subject: [PATCH] Add exercises for chap 2 --- 2 T1 Mapping/2-4 Exercises/01-Exercises.md | 6 +++--- 1 file changed, 3 insertions(+), 3 deletions(-) diff --git a/2 T1 Mapping/2-4 Exercises/01-Exercises.md b/2 T1 Mapping/2-4 Exercises/01-Exercises.md index bcc2ea7..da0f375 100644 --- a/2 T1 Mapping/2-4 Exercises/01-Exercises.md +++ b/2 T1 Mapping/2-4 Exercises/01-Exercises.md @@ -36,7 +36,7 @@ numbering: : **c.** Propose a new protocol that might yield more precise and/or accurate T1 maps. Why did you make those changes? How did you determine the improvement? **Problem 5 ⭑⭑** -:Find an open-source tool besides qMRLab that also has a VFA (also known as DESPOT1) fitting feature. Using simulated signal (with noise) and the qMRLab demo VFA human brain dataset, compare and contrast the T1 maps fitted using qMRLab and the other software chosen. Provide insights on the usability of both software, the reproducibility of the VFA T1 map using these data, and a comparison of both code (only API and the fitting algorithm for VFA). If you were to write your own VFA fitting software, what would do similar to either (or both) of these software packages. What would you do differently? +: Find an open-source tool besides qMRLab that also has a VFA (also known as DESPOT1) fitting feature. Using simulated signal (with noise) and the qMRLab demo VFA human brain dataset, compare and contrast the T1 maps fitted using qMRLab and the other software chosen. Provide insights on the usability of both software, the reproducibility of the VFA T1 map using these data, and a comparison of both code (only API and the fitting algorithm for VFA). If you were to write your own VFA fitting software, what would do similar to either (or both) of these software packages. What would you do differently? **Problem 6 ⭑⭑⭑** : **a.** You receive an email from a collaborator in your city asking for help with a T1 dataset they acquired on their new 3T scanner. They tried fitting the data with qMRLab already, but are getting T1 values in the brain that are beyond the expected values (eg, WM: 2000ms, GM, 5000 ms). They send you their acquired data. @@ -48,11 +48,11 @@ numbering: : **e.** What would you propose to your collaborator? Is a new data acquisition protocol required, or can you provide some post-processing corrections prior to fitting the data? **Problem 7 ⭑⭑⭑** -: You are currently in charge of a longitudinal study that uses VFA to acquire T1 maps. After an MRI scanner software upgrade, your T1 maps suddenly changed values substantially. Here is one of your old (good) datasets (link), and one of your new (bad) datasets. Using qMRLab, find what you suspect the problem is. Do you think a post-processing correction can be applied, or would an adjustment to the imaging protocol and new data acquisitions be needed ? +: You are currently in charge of a longitudinal study that uses VFA to acquire T1 maps. After an MRI scanner software upgrade, your T1 maps suddenly changed values substantially. Here is one of your old (good) datasets (link), and one of your new (bad) datasets. Using qMRLab, find what you suspect the problem is. Do you think a post-processing correction can be applied, or would an adjustment to the imaging protocol and new data acquisitions be needed ? **Problem 8 ⭑⭑⭑** : In this module, we presented methodology on how to fit data acquired using a SPGR pulse sequence for a fixed TR and varying the flip angle (VFA). One could also suggest to fix the flip angle and acquire data by varying TR and then fit for T1 (let’s call this VTR). Explore this idea analytically and numerically. What would be some advantages and disadvantages to VTR? Would you need as many, or more acquisition? Is VTR sensitive to B1? **Problem 9 ⭑⭑⭑** -In this module, we presented methodology on how to fit data acquired using an inversion recovery pulse sequence for a fixed TR and inversion time. As with the previous question, explore the idea of fixing the inversion time and varying TR to fit T1 maps. +: In this module, we presented methodology on how to fit data acquired using an inversion recovery pulse sequence for a fixed TR and inversion time. As with the previous question, explore the idea of fixing the inversion time and varying TR to fit T1 maps.