From b3ff22ffeea7b2a8a583e3fbf1b9d2b0f1fe5f19 Mon Sep 17 00:00:00 2001 From: Challen <273239067@qq.com> Date: Thu, 6 Jul 2017 15:15:57 +0800 Subject: [PATCH] add_new_method_for_BNV&track_back --- BrainNet/CCRN_59/7FN_CCN_colerated.edge | 59 ++++++++++ BrainNet/CCRN_59/ccrnnode.node | 60 ++++++++++ level5_to_level3_M2_type1.m | 105 ++++++++++++++++++ ...level3_M2.m => level5_to_level3_M2_type2.m | 2 +- 4 files changed, 225 insertions(+), 1 deletion(-) create mode 100644 BrainNet/CCRN_59/7FN_CCN_colerated.edge create mode 100644 BrainNet/CCRN_59/ccrnnode.node create mode 100644 level5_to_level3_M2_type1.m rename level5_to_level3_M2.m => level5_to_level3_M2_type2.m (97%) diff --git a/BrainNet/CCRN_59/7FN_CCN_colerated.edge b/BrainNet/CCRN_59/7FN_CCN_colerated.edge new file mode 100644 index 0000000..921e342 --- /dev/null +++ b/BrainNet/CCRN_59/7FN_CCN_colerated.edge @@ -0,0 +1,59 @@ + 0.0000000e+00 3.0000000e+01 0.0000000e+00 0.0000000e+00 0.0000000e+00 0.0000000e+00 6.0000000e+01 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b/BrainNet/CCRN_59/ccrnnode.node new file mode 100644 index 0000000..f294f35 --- /dev/null +++ b/BrainNet/CCRN_59/ccrnnode.node @@ -0,0 +1,60 @@ +#ccrn 59 +13.2 -21.81 9.16 3 3 SMA_L +-12.22 -21.79 8.6 3 3 SMA_R +13.2 -19.81 12.16 3 3 PFC_L +-12.22 -18.79 12.16 3 3 PFC_L +13.2 -19.81 9.16 2 2 Frontal_L +-12.22 -18.79 8.6 2 2 Frontal_R +15.11 -10.91 15.78 2 2 parietal_L +-15.14 -10.23 15.9 2 2 parietal_R +27.46 15.25 25.52 2 2 Limbic_L +-27.84 15.83 25.13 2 2 Limbic_R +4.21 5.54 36.45 2 2 Temporal_L +-4.8 5.6 33.37 2 2 Temporal_R +37.67 -24.36 -1.79 2 2 optical_L +-37.01 -25.44 -1.12 2 2 optical_R +22.2 -1.89 3.98 3 3 ACC_L +-22.2 -1.89 3.98 3 3 ACC_R +23.14 -61.39 -15.07 2 2 Insula_L +-23.14 -31.8 -15.97 2 2 Insula_R +47.21 -26.64 -11.35 2 2 BasalGang_L +-46 -22.93 -13.23 2 2 BasalGang_R +50.74 -23.24 -13.57 3 3 Thalamus_L +-54.81 -24.25 -13.01 3 3 Thalamus_R +34.39 -45.59 43.99 2 2 BasalForebrain_L +-34.8 -43.41 44.46 2 2 BasalForebrain_R +9.94 -22.08 1.04 2 2 midbrain_L +-9.27 -28.94 -1.1 2 2 midbrain_R +23.41 -78.78 10.47 2 2 cerebellum_L +-23.93 -76.64 11.95 2 2 cerebellum_R +38.26 -22.39 50.75 2 2 Pons_L +-32.66 -20.34 56.4 2 2 Pons_R +27.24 -12.79 29.13 2 2 Medulla_L +-27.52 -12.99 22.72 2 2 Medulla_R +29.94 26.39 21.29 2 2 AnteriorWM_L +-27.76 28.04 21.62 2 2 AnteriorWM_R +47.03 -3.54 1.23 2 2 PosteriorWM_L +-45.51 -3.47 3.43 2 2 PosteriorWM_R +22.2 1.89 3.98 2 2 CorpusCallosum_L +-21.42 3.68 3.32 2 2 CorpusCallosum_R +23.07 -20.95 -4.65 2 2 InferiorWM_L +-23.59 -59.81 -4.79 2 2 InferiorWM_R +-25.01 17.91 24.83 2 2 LimbicWM_L +26.66 17.18 26.79 2 2 LimbicWM_R +7.06 -30.97 -19.29 2 2 LatervalVentricle_L +-7.13 -43.42 -19.33 2 2 LatervalVentricle_R +9.76 -21.61 -4.18 2 2 IIIandIV_ventricle +15.57 -0.55 -5.84 2 2 FrontSul_L +-14.43 0.25 -6.16 2 2 FrontSul_R +11.17 -11.14 17.59 2 2 CentralSul_L +-11.17 -10.62 16.29 2 2 CentralSul_R +24.69 -49.73 53.74 2 2 SylvianFissureExt_L +-23.22 -49.07 53.84 2 2 SylvianFissureExt_R +23.86 29.17 36.16 2 2 parietsul_L +-19.63 29.96 37.18 2 2 parietsul_R +35.94 3.58 0.53 2 2 CinguSul_L +-35.33 6.81 1.13 2 2 CinguSul_R +12.18 -24.36 19.93 2 2 occiptsul_L +-12.25 -11.37 16.19 2 2 occiptsul_R +11.91 -79.51 23.71 2 2 TempSul_L +-15.3 -77.32 26.63 2 2 TempSul_R \ No newline at end of file diff --git a/level5_to_level3_M2_type1.m b/level5_to_level3_M2_type1.m new file mode 100644 index 0000000..efef4d1 --- /dev/null +++ b/level5_to_level3_M2_type1.m @@ -0,0 +1,105 @@ +%This programme trace back ROI information based on M2 segmention via a +%lookuptable.this programme can also generate a new lookuptable. +%Author: Challen zhangchanglehit@163.com +%Date: Jun-14th-2017 +clc; +clear all; +close all; + +load('M2lookuptable.mat'); %para named 'a' + +b = a(:,4); +hashset = unique(b); + +res = a; +row_num = zeros(53,1); +cnt = 1; +for z =1:283 +% flag = 0; + dim = size(hashset); + if(dim(2)~=0) + for j = 1:dim(1) + if isequal(res(z,4),hashset(j)) +% flag = 1; + row_num(cnt)=z; + hashset(j)=[]; + cnt=cnt+1; + break; + end + end + end +% if(flag==0) +% res(i,:)=[]; +% end +end +%after that we got important row num in array row_num + +cnt = 53; +for z=283:-1:1 + if(z~=row_num(cnt)) + res(z,:)=[]; + else + cnt=cnt-1; + end +end +%开始进行回溯 +path = 'H:\人民医院'; +cd(path) +dirs_G1=dir([path, '\*.*']); +dircell_G1=struct2cell(dirs_G1)' ; +filenames_G1=dircell_G1(3:length(dircell_G1),1); +for m=1:length(filenames_G1) + floder_name = char(filenames_G1(m)); + cd(floder_name); + disp(floder_name); + cd('output'); + dirs_G2=dir; + dircell_G2=struct2cell(dirs_G2)' ; + filenames_G2=dircell_G2(3:length(dircell_G2),1); + len = length(filenames_G2); + for j = 1:len + + filenamesIS = char(filenames_G2(j)); + jamar = strfind(filenamesIS,'283Labels_M2_MNI.img'); + if length(jamar) ~= 0 + + [hdr,filetype,fileprefix,machine] = load_nii_hdr(filenamesIS); + [img,hdr] = load_nii_img(hdr,filetype,fileprefix,machine); + %开始回溯步骤 + for indexer=1:53 + for img_index = 1:283 + if isequal(res(indexer,4),a(img_index,4)) + if indexer~= 37 + index=(img==img_index); %index是图像中对应label number的体素序号 + for t=img_index + index1=(img==t); + index=index|index1; + end + img(index)=indexer; + else + index=(img==img_index); %index是图像中对应label number的体素序号 + for t=img_index + index1=(img==t); + index=index|index1; + end + img(index)=0; + end + end + end + end + %从1到137排列，因为总共有136个脑区 + Lables=unique(img); + for z=1:53 + temp=Lables(z); %label number + index=(img==temp); %index是图像中对应label number的体素序号 + img(index)=z-1; + end + + CC_286_L=make_ana(img); %savemat + savename = strcat(floder_name,'_M2_MNI_level3_type1'); + save_untouch_nii(CC_286_L,savename); + cd(path); + end + end +end + diff --git a/level5_to_level3_M2.m b/level5_to_level3_M2_type2.m similarity index 97% rename from level5_to_level3_M2.m rename to level5_to_level3_M2_type2.m index 27b5b48..44aeb0f 100644 --- a/level5_to_level3_M2.m +++ b/level5_to_level3_M2_type2.m @@ -96,7 +96,7 @@ end CC_286_L=make_ana(img); %savemat - savename = strcat(floder_name,'_M2_MNI_level3'); + savename = strcat(floder_name,'_M2_MNI_level3_type2'); save_untouch_nii(CC_286_L,savename); cd(path); end