Acqusition and Analysis Pipeline

optimized protocol for micro-strucutre and connectivity analysis

 

1. Acquistion

Optimized acquisition protocols were implemented 3T scanners of GE, Siemens and Philips for CHARMED, AxCaliber and ActiveAx. The recommended protocol for each framework is provided in the table below. Expension of AxCaliber to AxCaliber3D will be provided in begining of 2013.

 

   CHARMED *  AxCaliber *  ActiveAx **
 Matrix Size  80x80  128x128  128x128
 Resolution (mm)  2.4x2.4x3.0  1.5x1.5x3.0  1.8x1.8x3.9
 Max Gradient (G/cm)  ~4  ~4  ~4
 Δ/δ (ms)  38/32  (88,68,48,28)/21  (70,15,70)/15
 TR/TE (ms)  17000/90  6000/137  6000/122
 Max b (s/mm2)  4000  4000  500, 700, 2770, 2880
 Brain Coverage  Full  Single Slice  Full
 Gradient Scheme  3 at b=0; 6 at b=1000; 15 at b=2500; 16 at b=4000  Single direction Perpendicular to the CC. 28 b value incremented linearly from 0 to 4000  90 directions per each b value

* Protocols are available here. For additional details you may contact Yaniv Assaf

** Protocols are available here. For additional details you may contact Danny Alexander

 

 

2. Software

Below are links to software that contains tools to analyze the abovementioned acqusition frameworks.

Connectivity/Tractography tools

Micro-structure tools

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