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src/BNAPlatform-weighted-network-win64-cuda7.0-20151118/bin/BNA.bat
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@echo ******************************************************************************* | ||
@echo * Welcome to use ParBNA by NICS, EE, Tsinghua University * | ||
@echo * Brain Network Analysis * | ||
@echo * This function calculates characteristics of brain networks, * | ||
@echo * Degree, Clustering coefficients (Cp), Graph diameter (Lp), Modular structure* | ||
@echo ******************************************************************************* | ||
|
||
@echo -Please enter a directory containing your networks (.csr files) | ||
@echo -All the .csr files in the directory will be processed. | ||
@set /p out=^>^><nul | ||
@set /p directory="C:\YuduLi\sub002lzg" | ||
@echo. | ||
|
||
@echo. >BNA_execute.bat | ||
@echo -Do you want to calculate Degree [Y, N]? | ||
@set /p out=^>^><nul | ||
@set /p mychoice= | ||
@echo. | ||
@if %mychoice%==Y goto calcu_degree | ||
@if %mychoice%==y goto calcu_degree | ||
@if %mychoice%==N goto ask_Cp | ||
@if %mychoice%==n goto ask_Cp | ||
@:calcu_degree | ||
@echo .\Degree.exe %directory%>>BNA_execute.bat | ||
@goto ask_Cp | ||
|
||
@:ask_Cp | ||
@echo -Do you want to calculate Cp [Y, N]? | ||
@set /p out=^>^><nul | ||
@set /p mychoice= | ||
@echo. | ||
@if %mychoice%==Y goto calcu_Cp | ||
@if %mychoice%==y goto calcu_Cp | ||
@if %mychoice%==N goto ask_Lp | ||
@if %mychoice%==n goto ask_Lp | ||
@:calcu_Cp | ||
@echo -How many random networks for Cp comparison? Enter 0 if desiring no comparison. | ||
@set /p out=^>^><nul | ||
@set /p number= | ||
@echo. | ||
@echo .\Cp.exe %directory% %number% >>BNA_execute.bat | ||
@goto ask_Lp | ||
|
||
@:ask_Lp | ||
@echo -Do you want to calculate Lp [Y, N]? | ||
@set /p out=^>^><nul | ||
@set /p mychoice= | ||
@echo. | ||
@if %mychoice%==Y goto calcu_Lp | ||
@if %mychoice%==y goto calcu_Lp | ||
@if %mychoice%==N goto ask_bc | ||
@if %mychoice%==n goto ask_bc | ||
@:calcu_Lp | ||
@echo -How many random networks for Lp comparison? Enter 0 if desiring no comparison. | ||
@set /p out=^>^><nul | ||
@set /p number= | ||
@echo. | ||
@echo .\CUBFW_Lp.exe %directory% %number% >>BNA_execute.bat | ||
@goto ask_bc | ||
|
||
@:ask_bc | ||
@echo -Do you want to calculate Betweenness Centrality [Y, N]? | ||
@set /p out=^>^><nul | ||
@set /p mychoice= | ||
@echo. | ||
@if %mychoice%==Y goto calcu_bc | ||
@if %mychoice%==y goto calcu_bc | ||
@if %mychoice%==N goto end | ||
@if %mychoice%==n goto end | ||
@:calcu_bc | ||
@echo .\CUBC.exe %directory%>>BNA_execute.bat | ||
|
||
@:end | ||
@echo @pause>>BNA_execute.bat | ||
@.\BNA_execute.bat | ||
@pause |
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src/BNAPlatform-weighted-network-win64-cuda7.0-20151118/bin/BNA_execute.bat
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.\Degree.exe | ||
@pause |
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src/BNAPlatform-weighted-network-win64-cuda7.0-20151118/bin/BNA_time_log
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Degree c:\YuduLi\sub002lzg\CovRegressed_4DVolume_69078_spa11.620%_cor0.250.csrCPU kernel time 0.521s | ||
Degree c:\YuduLi\sub002lzg\CovRegressed_4DVolume_69078_spa4.835%_cor0.350.csrCPU kernel time 0.217s | ||
Degree c:\YuduLi\sub002lzg\CovRegressed_4DVolume_69078_spa7.643%_cor0.300.csrCPU kernel time 0.343s | ||
Degree CPU total time 16.517s | ||
|
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src/BNAPlatform-weighted-network-win64-cuda7.0-20151118/bin/BNC.bat
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@echo ******************************************************************************* | ||
@echo * Welcome to use ParBNA by NICS, EE, Tsinghua University * | ||
@echo * Brain Network Construction * | ||
@echo * This function constructs brain networks from BOLD signals * | ||
@echo ******************************************************************************* | ||
|
||
@echo -Please enter a directory containing your .nii files for BOLD signals. | ||
@echo -The directory should contain a "mask.nii". | ||
@echo -All the .nii file(s) in the directory will be processed. | ||
@set /p out=^>^><nul | ||
@set /p directory="C:\YuduLi\sub002lzg" | ||
@echo. | ||
|
||
@echo -Please input a threshold for "mask.nii" to select the valid voxel [0~1]. | ||
@echo -e.g. 0.5 | ||
@set /p out=^>^><nul | ||
@set /p threshold_mask= 0.5 | ||
@echo. | ||
|
||
@echo -Please input threshold(s) for correlation coefficients to binarize the network(s) [0~1]. | ||
@echo -e.g. 0.5 0.6 0.7 | ||
@set /p out=^>^><nul | ||
@set /p threshold_corr= 0.5 | ||
@echo. | ||
|
||
@echo -Are the correlation metrices to be averaged [Y, N, B]? | ||
@echo -Y: The output is a network averaged from all the corelation matrices. | ||
@echo -N: The output are individual networks. | ||
@echo -B: The output are both of above. | ||
@set /p out=^>^><nul | ||
@set /p average= N | ||
@echo. | ||
|
||
@echo .\CUCorMat.exe "C:\YuduLi\sub002lzg" 0.2 n n r 0.25 0.3 0.35>BNC_execute.bat | ||
@echo @pause>>BNC_execute.bat | ||
@.\BNC_execute.bat | ||
@pause |
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src/BNAPlatform-weighted-network-win64-cuda7.0-20151118/bin/BNCA_20120816.bat
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rem .\CUCorMat.exe E:\xumo\4Dnii 0.2 Y 0.15 0.25 0.35 0.45 0.55 | ||
rem .\ConvertNII.exe E:\xumo\4Dnii\4Dnii_197_58523_0.023%.deg E:\xumo\4Dnii\mask.nii 0.2 | ||
rem .\Degree.exe E:\xumo\4Dnii | ||
.\Cp.exe E:\xumo\niimodu 10 | ||
rem .\Modularity_CPU.exe E:\xumo\4Dnii 0 | ||
rem .\CUBFW_Lp.exe E:\xumo\4Dnii 0 | ||
rem .\CUBFW_Lp.exe E:\xumo\4Dnii 0 | ||
rem .\CUBC.exe E:\xumo\4Dnii | ||
|
||
rem.\CUBFW_Lp.exe E:\xumo\onenii 0 | ||
@pause |
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src/BNAPlatform-weighted-network-win64-cuda7.0-20151118/bin/BNC_execute.bat
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.\CUCorMat.exe "C:\YuduLi\sub002lzg" 0.2 n n r 0.25 0.3 0.35 | ||
@pause |
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src/BNAPlatform-weighted-network-win64-cuda7.0-20151118/doc/parabna_manuscript_v4.5.pdf
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src/BNAPlatform-weighted-network-win64-cuda7.0-20151118/src/BNAPlatform_cuda_weighted.sdf
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src/BNAPlatform-weighted-network-win64-cuda7.0-20151118/src/BNAPlatform_cuda_weighted.sln
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|
||
Microsoft Visual Studio Solution File, Format Version 12.00 | ||
# Visual Studio 2012 | ||
Project("{8BC9CEB8-8B4A-11D0-8D11-00A0C91BC942}") = "ConvertNII", "ConvertNII\ConvertNII\ConvertNII.vcxproj", "{B2C2F911-0531-4334-82C4-A675D9B2CF1B}" | ||
EndProject | ||
Project("{8BC9CEB8-8B4A-11D0-8D11-00A0C91BC942}") = "Cp", "Cp\Cp\Cp.vcxproj", "{285304C3-6C56-49C4-91F6-03E8332751BC}" | ||
EndProject | ||
Project("{8BC9CEB8-8B4A-11D0-8D11-00A0C91BC942}") = "Degree", "Degree\Degree\Degree.vcxproj", "{2B6A645D-BCFC-486A-B0FA-FC6EF5737C37}" | ||
EndProject | ||
Project("{2150E333-8FDC-42A3-9474-1A3956D46DE8}") = "Solution Items", "Solution Items", "{356D47D3-157B-445A-A6E1-18542D355954}" | ||
EndProject | ||
Project("{8BC9CEB8-8B4A-11D0-8D11-00A0C91BC942}") = "Louvain_Modularity", "Louvain_Modularity\Louvain_Modularity\Louvain_Modularity.vcxproj", "{CD5F1456-82DB-4F8F-A11B-F9D930330D1B}" | ||
EndProject | ||
Project("{8BC9CEB8-8B4A-11D0-8D11-00A0C91BC942}") = "PC_CPU", "PC_CPU\PC_CPU\PC_CPU.vcxproj", "{B3F755C9-4B9F-4AED-A171-3269D390228B}" | ||
EndProject | ||
Project("{8BC9CEB8-8B4A-11D0-8D11-00A0C91BC942}") = "CUCorMat", "CorMat\CUCorMat\CUCorMat\CUCorMat.vcxproj", "{3ED85F69-EDFD-41F3-A8FC-804596D267AC}" | ||
EndProject | ||
Project("{8BC9CEB8-8B4A-11D0-8D11-00A0C91BC942}") = "CUCP", "Cp_GPU\CUCP\CUCP.vcxproj", "{020F3508-B64C-4F67-9936-B1FBB1D870C5}" | ||
EndProject | ||
Project("{8BC9CEB8-8B4A-11D0-8D11-00A0C91BC942}") = "CUBFW_Lp", "Lp\CUBFW_Lp\CUBFW_Lp\CUBFW_Lp.vcxproj", "{D1B7B08C-C14D-4011-959F-14F7DD0F952D}" | ||
EndProject | ||
Project("{8BC9CEB8-8B4A-11D0-8D11-00A0C91BC942}") = "CUEC", "CUEC\CUEC.vcxproj", "{EBE7A838-C722-4643-981E-1C0C0A9077C7}" | ||
EndProject | ||
Project("{8BC9CEB8-8B4A-11D0-8D11-00A0C91BC942}") = "SmallWorldProperty", "SmallWorldProperty\SmallWorldProperty.vcxproj", "{7E3F01B7-3DA9-4BA0-A527-0DFBE1504DD4}" | ||
EndProject | ||
Global | ||
GlobalSection(SolutionConfigurationPlatforms) = preSolution | ||
Debug|Mixed Platforms = Debug|Mixed Platforms | ||
Debug|Win32 = Debug|Win32 | ||
Debug|x64 = Debug|x64 | ||
Release|Mixed Platforms = Release|Mixed Platforms | ||
Release|Win32 = Release|Win32 | ||
Release|x64 = Release|x64 | ||
EndGlobalSection | ||
GlobalSection(ProjectConfigurationPlatforms) = postSolution | ||
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{CD5F1456-82DB-4F8F-A11B-F9D930330D1B}.Debug|x64.ActiveCfg = Debug|x64 | ||
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{B3F755C9-4B9F-4AED-A171-3269D390228B}.Release|Mixed Platforms.Build.0 = Release|Win32 | ||
{B3F755C9-4B9F-4AED-A171-3269D390228B}.Release|Win32.ActiveCfg = Release|Win32 | ||
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{B3F755C9-4B9F-4AED-A171-3269D390228B}.Release|x64.ActiveCfg = Release|x64 | ||
{B3F755C9-4B9F-4AED-A171-3269D390228B}.Release|x64.Build.0 = Release|x64 | ||
{3ED85F69-EDFD-41F3-A8FC-804596D267AC}.Debug|Mixed Platforms.ActiveCfg = Debug|Win32 | ||
{3ED85F69-EDFD-41F3-A8FC-804596D267AC}.Debug|Mixed Platforms.Build.0 = Debug|Win32 | ||
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