T2w sag - multiple runs

[valosekj]

• sub-2315B4686B/ses-4686B has two runs, both 0.28x0.28x1.3mm --> use run-01 (sub-2315B4686B/ses-4686B/anat/sub-2315B4686B_ses-4686B_run-01_T2w.nii.gz)

cd /md3/dcm-brno/sub-2315B4686B/ses-4686B/anat
mkdir notused
mv *run* notused
cp notused/sub-2315B4686B_ses-4686B_run-01_T2w.nii.gz sub-2315B4686B_ses-4686B_T2w.nii.gz
cp notused/sub-2315B4686B_ses-4686B_run-01_T2w.json sub-2315B4686B_ses-4686B_T2w.json

• sub-2321B6243B/ses-6243B has two runs, first 0.28x0.28x1.3mm, second 0.8mm iso --> use run-02 (sub-2321B6243B/ses-6243B/anat/sub-2321B6243B_ses-6243B_run-02_T2w.nii.gz)

cd /md3/dcm-brno/sub-2321B6243B/ses-6243B/anat
mkdir notused
mv *run* notused
cp notused/sub-2321B6243B_ses-6243B_run-02_T2w.nii.gz sub-2321B6243B_ses-6243B_T2w.nii.gz
cp notused/sub-2321B6243B_ses-6243B_run-02_T2w.json sub-2321B6243B_ses-6243B_T2w.json

• sub-2407B5757B/ses-2407B has two runs, both 0.28x0.28x1.3mm; first one has a motion artifact --> use run-02 (sub-2407B5757B/ses-2407B/anat/sub-2407B5757B_ses-2407B_run-02_T2w.nii.gz)

cd /md3/dcm-brno/sub-2407B5757B/ses-2407B/anat
mkdir notused
mv *run* notused
cp notused/sub-2407B5757B_ses-2407B_run-02_T2w.nii.gz sub-2407B5757B_ses-2407B_T2w.nii.gz
cp notused/sub-2407B5757B_ses-2407B_run-02_T2w.json sub-2407B5757B_ses-2407B_T2w.json

• sub-2247B6492B/ses-2247B has two runs, both 0.28x0.28x1.3mm; first one has a motion artifact --> use run-02 (sub-2407B5757B/ses-2407B/anat/sub-2247B6492B_ses-2247B_run-02_T2w.nii.gz)

cd /md3/dcm-brno/sub-2247B6492B/ses-2247B/anat
mkdir notused
mv *run* notused
cp notused/sub-2247B6492B_ses-2247B_run-02_T2w.nii.gz sub-2247B6492B_ses-2247B_T2w.nii.gz
cp notused/sub-2247B6492B_ses-2247B_run-02_T2w.json sub-2247B6492B_ses-2247B_T2w.json

• sub-2391B6466B/ses-2391B has two runs, both 0.28x0.28x1.3mm; first one has a motion artifact --> use run-02 (sub-2391B6466B/ses-2391B/anat/sub-2391B6466B_ses-2391B_run-02_T2w.nii.gz)

cd /md3/dcm-brno/sub-2391B6466B/ses-2391B/anat
mkdir notused
mv *run* notused
cp notused/sub-2391B6466B_ses-2391B_run-02_T2w.nii.gz sub-2391B6466B_ses-2391B_T2w.nii.gz
cp notused/sub-2391B6466B_ses-2391B_run-02_T2w.json sub-2391B6466B_ses-2391B_T2w.json

• sub-3013B6405B/ses-6405B has two runs, first 0.28x0.28x1.3mm, second 0.8mm iso --> use run-02 (sub-3013B6405B/ses-6405B/anat/sub-3013B6405B_ses-6405B_run-02_T2w.nii.gz)

cd /md3/dcm-brno/sub-3013B6405B/ses-6405B/anat
mkdir notused
mv *run* notused
cp notused/sub-3013B6405B_ses-6405B_run-02_T2w.nii.gz sub-3013B6405B_ses-6405B_T2w.nii.gz
cp notused/sub-3013B6405B_ses-6405B_run-02_T2w.json sub-3013B6405B_ses-6405B_T2w.json

• sub-3148B/ses-3148B has two runs, run-01 contains the entire brain and only spine till C5 --> using run-02:

/md3/dcm-brno/sub-3148B/ses-3148B/anat
mkdir notused
mv *run* notused
cp notused/sub-3148B_ses-3148B_run-02_T2w.nii.gz sub-3148B_ses-3148B_T2w.nii.gz
cp notused/sub-3148B_ses-3148B_run-02_T2w.json sub-3148B_ses-3148B_T2w.json

[valosekj]

• sub-2296B4806B_ses-2296B_T2w.nii.gz - blurry -- hard to correct SC seg --> exclude from T2w analysis

Details

• sub-2315B4686B_ses-2315B_T2w.nii.gz - blurry -- hard to correct SC seg --> exclude from T2w analysis

Details

• sub-2884B4714B_ses-2884B_T2w.nii.gz - blurry -- check the SC seg

Details

• sub-2884B4714B_ses-4714B_T2w.nii.gz - blurry -- check the SC seg

Details

• sub-2886B5253B_ses-2886B_T2w.nii.gz - blurry -- check the SC seg

Details

• sub-3782B6193B_ses-3782B_T2w.nii.gz - blurry -- hard to correct SC seg --> exclude from T2w analysis

Details

• sub-2825B4881B_ses-2825B_T2w.nii.gz - blurry -- hard to correct SC seg --> exclude from T2w analysis

• sub-2825B4881B_ses-4881B_T2w.nii.gz - blurry -- hard to correct SC seg --> exclude from T2w analysis

• sub-1838B6577B_ses-1838B_T2w.nii.gz - blurry -- hard to correct SC seg --> exclude from T2w analysis

• sub-2702B6403B_ses-2702B_T2w.nii.gz - blurry -- hard to correct SC seg --> exclude from T2w analysis

• sub-3998B6406B_ses-3998B_T2w.nii.gz -- difficult to correct SC seg --> let's see how shape metrics will look like

• sub-2247B6492B_ses-2247B_T2w.nii.gz - blurry -- hard to correct SC seg --> exclude from T2w analysis