FAQS: Difference between revisions
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== Distortion correction == | == Distortion correction == | ||
We recommend using FSL's Topup. | We recommend using FSL's Topup. An example pipeline for running topup is given on https://fsl.fmrib.ox.ac.uk/fsl/fslwiki/topup/ExampleTopupFollowedByApplytopup | ||
Note that it is not usually necessary to calculate the readout duration (and look for parameters such as the ETL and echo spacing), because all our topup images are matched in terms of readout length to the functional or diffusion scan they are used to correct. Hence, providing a readout length of '1' will generate warp field in units of voxels rather than mm. These can be equally well to undistort the images, in exactly the same way as in the ApplyTopup example. | |||
== MP2RAGE and MP2RAGEME == | == MP2RAGE and MP2RAGEME == | ||
Revision as of 13:02, 27 January 2021
BIDS
Distortion correction
We recommend using FSL's Topup. An example pipeline for running topup is given on https://fsl.fmrib.ox.ac.uk/fsl/fslwiki/topup/ExampleTopupFollowedByApplytopup Note that it is not usually necessary to calculate the readout duration (and look for parameters such as the ETL and echo spacing), because all our topup images are matched in terms of readout length to the functional or diffusion scan they are used to correct. Hence, providing a readout length of '1' will generate warp field in units of voxels rather than mm. These can be equally well to undistort the images, in exactly the same way as in the ApplyTopup example.