================== README: GROUP2 ======================== #### For each patient you have the following files (example with case #05): 05_mr_tal.mnc: MRI in Talairach space 05a_us_tal.mnc: Ultrasound in Talairach space - The lowercase letter after the patient number indicates which sweep of US was used - for those that wish to use data in group 1. - The pre-resection sweep used in group2 is the one for which tags were selected in group1. 05_transform_mr_back_in_native.xfm: Apply this transform on MR to put it in native space as the MRIs in group3 (inverse of rigid Talairach transform) 05_transform_us_back_in_native.xfm: Apply this transform on US to put it in native space as the USs in group1 (concatenation of inverse of patient reg with inverse of rigid Talairach transform) 05_tumor_mask_tal.mnc: mask (minc file) deifining the tumor region in Talairach space 05_set1.tag: Homologous landmarks chosen by Laurence Mercier 05_set2.tag: Homologous landmarks chosen by Louis Collins 05_set3.tag: Homologous landmarks chosen by Claire Haegelen (for the 6 first patients only) 05_all.tag: Combined homologous landmarks chosen by all experts. 2dus: directory containing A) The 2dus in native space B) transform_in_tal.xfm: the necessary transform (inverse of ??_transform_us_back_in_native.xfm) to put the data in the same space as the 3d US (e.g. 05a_us_tal.mnc). * Note that some cases have two different tumor masks: - case #02: one mask with the tumor on which the operation was done and the other mask with the tumors in both hemispheres. - case #05: one mask with the tumor only and the other including the previous resection cavity. - case #10: this mask contains two different labels (intensity values), one for the enhancing tumor and another for the non-enhancing tumor. #### Tips to manipulate the data: 1) To put the MRI of patient #14 back into MRI native space as in group3: mincresample 14_mr_tal.mnc -transform 14_transform_mr_back_in_native.xfm 14_mr_native.mnc -tfm 2) To put the 3DUS of patient #14 back into US native space as in group1: mincresample 14_us_tal.mnc -transform 14_transform_us_back_in_native.xfm 14_us_native.mnc -tfm 3) To put one 2DUS of patient #14 in Talairach space like the 3DUS mincresample 14b.2dus.00150sm.mnc -transform transform_in_tal.xfm 14b.2dus.00150sm_tal.mnc -tfm