original stains
DESCRIPTION
Image processing steps: stains and MRI. original stains. CAL. TH. Perls’. landmark based co-registration : MRI to Perls ’. Perls’. T2*w 3D. T2*w overlapped on Perls’. co-registered images. T2*w. TH. CAL. Perls’. masked, in gray scale. mask. T2*w. TH. NM. CAL (B ch). iron. - PowerPoint PPT PresentationTRANSCRIPT
original stains
landmark basedco-registration: MRI to Perls’
co-registered images
mask T2*w CAL (B ch) TH iron NM
T2*w 3D
CAL TH Perls’
Perls’ T2*w overlapped on Perls’
T2*w CAL TH Perls’
masked,in gray scale
binarized , thresholdedmanually corrected (white removed)
CAL (110) TH (125) Iron (185) NM (250)
Figure e-2. Image processing steps (on sample from HC2). The stages were: co-registration based on landmarks, 'cleanup' (masking the whole stem, removing small veins, artifacts etc.), converting to gray scale, thresholding and thus binarizing the images, and hence making the masks for iron, NM, TH, calbindin. The final masks were also corrected to remove remaining artifacts.
Image processing steps: stains and MRI