Hello Dear FSL Experts,
We have siemnes skyra 3T magnet and used mult band EPI pulse sequnce to acquired this HARDI data with 64 direction and two b values (0 and 2500) with forward and reverse polarity in neonates. Then I used the FSL topup application to combine the reverse polarity data. but when I used this combined polarity DTI file for tractograpgy. I get very small nubers of fibers from CST or CC and also they are very short in length, I suspect that there might be flip of gradient table becuase we acquired data on Siemens 3T Skyra.
Inspite of fiber tract the other things look right with this data like the color FA maps look correct with color orienation. Then, I tried to flip x, y and z direction but seems nothing is working. I'm not sure what went wrong with this topup application.
Please help me with this regards.
Any help/suggestion would be greatly appreciated.
Thanks
Manoj
|