These few subjects used for showing how our CNN works come from the ABIDE repository: 

http://fcon_1000.projects.nitrc.org/indi/abide/

The best way to create your dataset to be loaded in this work, is as follows:

|

|____ MR/

|     |___ All your images (CT/MR/other modality)

|            |__ MR_0

|            |__ MR_1

|            |__ etc..

|

|____ Label/

|     |___ Corresponding labels (Be aware that they should be in the same order than images in previous folder)

|            |__ GT_0

|            |__ GT_1

|            |__ etc...

|

|____ ROI/

|     |___ If you use masks to prone the region of interest, they should be here

|            |__ ROI_0

|            |__ ROI_1

|            |__ etc...