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We want to perform appearance-based analysis that also takes advantage of automated outputs, especially segmentations. For this, we have considered different options: raw image, orig.mgz, norm.mgz, T1.mgz, in addition to whether to use base or long pipeline images. There are competing considerations of some intensity normalization being helpful, and at the same time avoiding heavy pre-processing. Are there any recommendations from folks who might have done analysis like this ?
I would recommend the norm.mgz as it should be scaled so that the WM is 110 and bias fields would have been (mostly) removed.
On 11/12/2024 12:06 AM, Sandhitsu Das wrote:
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We want to perform appearance-based analysis that also takes advantage of automated outputs, especially segmentations. For this, we have considered different options: raw image, orig.mgz, norm.mgz, T1.mgz, in addition to whether to use base or long pipeline images. There are competing considerations of some intensity normalization being helpful, and at the same time avoiding heavy pre-processing. Are there any recommendations from folks who might have done analysis like this ?
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Thanks -- how much additional processing would the norm.mgz images have gone through in the longitudinal pipeline compared to base ? It seems they are all in the SST space which leads me to think there is at least additional interpolation -- but are there further processing that would affect the intensity distributions ?
On Tue, Nov 12, 2024 at 11:02 AM Douglas N. Greve dgreve@mgh.harvard.edu wrote:
I would recommend the norm.mgz as it should be scaled so that the WM is 110 and bias fields would have been (mostly) removed.
On 11/12/2024 12:06 AM, Sandhitsu Das wrote:
External Email - Use CautionWe want to perform appearance-based analysis that also takes advantage of automated outputs, especially segmentations. For this, we have considered different options: raw image, orig.mgz, norm.mgz, T1.mgz, in addition to whether to use base or long pipeline images. There are competing considerations of some intensity normalization being helpful, and at the same time avoiding heavy pre-processing. Are there any recommendations from folks who might have done analysis like this ?
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Sandhitsu Das