External Email - Use Caution

Hello again,

I use Freesurfer-Samseg for MS lesion segmentation(cross-sectional).

I use the T1 and Flair for this. (just these are inputs) I registered *flair and t1 to DIR *for every patient. (My manual lesion masks are on DIR imaging.) I controlled the registrations, thea are true.

I created a binary lesion mask using different threshold. (mri_binarize --i /data/projects/MS_MRI/posteriors/Lesions.mgz --o /data/projects/MS_MR/binarize/lesion_binary.mgz --min 0.01) I checked the dice score with ground truth values with python.

*threshold *0.1= *dice* 0,604 *threshold *0.05= *dice *0.611 *threshold *0.001 = *dice *0.599

Do you have any recommendations to increase the dice?

# cvs_version 7.2.0 # sysname Linux # machine x86_64

Douglas N. Greve dgreve@mgh.harvard.edu, 31 Ağu 2022 Çar, 00:12 tarihinde şunu yazdı:

Hi Dilek, your bug report is incomplete. Please see https://secure-web.cisco.com/1RnsI-tf_KXbBLM99OHi9vq19avjAsCHrt3Y-Vc96p1_VmC... for how to file an informative bug report.

On 8/30/2022 12:51 PM, Dilek Özkan wrote:

    External Email - Use Caution

Hello dear all,

I use Freesurfer-Samseg for MS lesion segmentation(cross-sectional).

I use the T1 and Flair for this. (just these are inputs) I registered *flair and t1 to DIR *for every patient. (My manual lesion masks are on DIR imaging.) I controlled the registrations

At the beginning i didnt change initial threshold of run_samseg. (default value)

I created a binary lesion mask using different threshold.

*threshold *0.1= *dice* 0,604 *threshold *0.05= *dice *0.611 *threshold *0.001 = *dice *0.599

Do you have any recommendations to increase the dice? It seems that with this way It can't go up about 0.6

Best, Dilek

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