[zafarneyaz]

I also have similiar problem… Kindly elaborate how a dwi-mask will be generated.

[Anonymous]

No, this is not related to the mask for T1w/MPRAGE image. For registration, BDP needs to use an approximate brain-mask for diffusion data. This mask can be defined via --dwi-mask flag. When it not defined then BDP shows this message.

It is recommended to check the automatically estimated mask after processing, as large inaccuracies in the DWI-mask can affect the registration and distortion correction. In case of inaccurate estimation, the DWI-mask should be manually edited and BDP should be re-run with --dwi-mask flag.

[Author]

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