├── Functions ├── ARIMatrix_TwoAtlas.m ├── Atlas_Homogeneity.m ├── Atlas_Homogeneity_Pipeline.m ├── CZ_CiftiWrite_dlabel.m ├── CZ_CiftiWrite_dscalar.m ├── CZ_FSProjectToSurface.m ├── CZ_FSProjectToSurface_SNR.m ├── CZ_Merge3Modality_FS.m ├── Ridge_CZ_Random.py ├── Ridge_CZ_Random.pyc ├── Ridge_CZ_Random_CategoricalFeatures.py ├── Ridge_CZ_Sort.py ├── Ridge_CZ_Sort.pyc ├── Ridge_CZ_Sort_CategoricalFeatures.py ├── __pycache__ │ ├── Ridge_CZ_Random.cpython-36.pyc │ ├── Ridge_CZ_Random_CategoricalFeatures.cpython-36.pyc │ ├── Ridge_CZ_Random_RegressCovariates.cpython-36.pyc │ ├── Ridge_CZ_Sort.cpython-36.pyc │ ├── Ridge_CZ_Sort_CategoricalFeatures.cpython-36.pyc │ └── Ridge_CZ_Sort_RegressCovariates.cpython-36.pyc └── read_fmri.m ├── README.md ├── Step_1st_PrepareData ├── Step_1st_SubjectFilter.R ├── Step_2nd_ExtractBehavior.R ├── Step_3rd_CopyStructFSFiles.m ├── Step_4th_DataFSProcessing.m ├── Step_5th_MergeModalities.m ├── Step_6th_tSNRMask_1_ExtractSignal.m ├── Step_6th_tSNRMask_2_ProjectSurface.m └── Step_6th_tSNRMask_3_ModeNorm_Thresh.m ├── Step_2nd_SingleParcellation ├── Step_10th_ViolinPlot_AtlasVariability_Loading.R ├── Step_11th_SingleParcellation_7Networks │ ├── Step_1st_CreatePrepData.m │ ├── Step_2nd_ParcellationInitialize.m │ ├── Step_3rd_SelRobustInit.m │ ├── Step_4th_IndividualParcel.m │ ├── Step_5th_AtlasInformation_Extract.m │ ├── Step_6th_GroupAtlas_Extract.m │ ├── Step_7th_NetworkNaming_Yeo.m │ ├── Step_8th_Visualize_Workbench_Atlas.m │ └── Step_9th_Visualize_Workbench_AtlasVariability.m ├── Step_1st_CreatePrepData.m ├── Step_2nd_ParcellationInitialize.m ├── Step_3rd_SelRobustInit.m ├── Step_4th_IndividualParcel.m ├── Step_5th_AtlasInformation_Extract.m ├── Step_6th_GroupAtlas_Extract.m ├── Step_7th_NetworkNaming_Yeo.m ├── Step_8th_Visualize_Workbench_Atlas.m ├── Step_9th_1_Visualize_Workbench_AtlasVariability.m └── Step_9th_2_Visualize_Workbench_AtlasVariability_3AgeGroups.m ├── Step_3rd_SingleParcellation_KongMethod ├── Step_1st_MaskTimeSeries.m ├── Step_2nd_ConvertFileFormat.m ├── Step_3rd_PrepareInput_ForGenerateProfile.m ├── Step_4th_1_GenerateProfile.m ├── Step_4th_2_AverageProfile_IniParams.m ├── Step_5th_PrepareInput_ForParcellation.m ├── Step_6th_IndividualizedParcellation.m ├── Step_7th_NetworkNaming_Yeo.m └── Step_8th_LabelVariability_Map.m ├── Step_4th_Atlas_Homogeneity_Reliability ├── Step_10th_ARIMatrix_HistogramPlot.R ├── Step_10th_ARIMatrix_Plot.py ├── Step_1st_Homogeneity_Hongming.m ├── Step_2nd_Homogeneity_HongmingGroupAtlas.m ├── Step_3rd_Homogeneity_Yeo17Atlas.m ├── Step_4th_Homogeneity_Kong.m ├── Step_5th_Homogeneity_BarPlot.R ├── Step_6th_PrepareData_ForSpinTest.R ├── Step_7th_SpinTest_PermutationCreate.m ├── Step_8th_ARI_HongmingGroup_Yeo17.m └── Step_9th_ARI_Hongming_Kong.m ├── Step_5th_ProportionSizeEffects └── Step_1st_NetworkProportionSize_AgeCognitionEffects.R ├── Step_6th_LoadingEffects ├── Step_1st_AgeCognitionEffects_AtlasLoading.R ├── Step_2nd_WriteEffectMap_Workbench_Age.m ├── Step_2nd_WriteEffectMap_Workbench_EF.m ├── Step_3rd_NetworkLoading_Youngest_Oldest.m ├── Step_4th_Corr_NetworkVariability_NumOfSigVertices.R └── Step_5th_Loading_AgeZ_Corr_EachNetwork_PositiveZ_FDRSig.R ├── Step_7th_PredictionAnalysis ├── AtlasLabel │ ├── 1st_Sorted_2FCV │ │ ├── Step_1st_AtlasFeature_SaveMat.m │ │ ├── Step_2nd_Prediction_2Fold_Age.py │ │ ├── Step_2nd_Prediction_2Fold_EFAccuracy.py │ │ ├── Step_3rd_Prediction_Specificity_Sig_Age.m │ │ ├── Step_3rd_Prediction_Specificity_Sig_EFAccuracy.m │ │ ├── Step_4th_Prediction_ScatterPlot_2Fold_Age.R │ │ ├── Step_4th_Prediction_ScatterPlot_2Fold_EFAccuracy.R │ │ └── Step_5th_PermutationHistogram.R │ └── 2nd_Random_2FCV │ │ ├── Step_1st_Prediction_2Fold_Age_RandomCV.py │ │ ├── Step_1st_Prediction_2Fold_EFAccuracy_RandomCV.py │ │ ├── Step_2nd_Prediction_Specificity_Age_RandomCV.m │ │ ├── Step_2nd_Prediction_Specificity_EFAccuracy_RandomCV.m │ │ ├── Step_3rd_Histogram_Age.R │ │ ├── Step_3rd_Histogram_EFAccuracy.R │ │ ├── Step_4th_Weight_Visualize_Workbench_Age_RandomCV.m │ │ ├── Step_4th_Weight_Visualize_Workbench_EFAccuracy_RandomCV.m │ │ └── Step_5th_Corr_VariabilityWeight │ │ ├── Step_1st_PrepareData_ForSpinTest.R │ │ ├── Step_2nd_SpinTest_PermutationCreate.m │ │ ├── Step_3rd_Data_Extract.m │ │ └── Step_4th_MeanVariability_AgeCognitionEffects_Corr.R ├── AtlasLabel_Kong │ ├── 1st_Sorted_2FCV │ │ ├── Step_1st_AtlasFeature_SaveMat.m │ │ ├── Step_2nd_Prediction_2Fold_Age.py │ │ ├── Step_2nd_Prediction_2Fold_EFAccuracy.py │ │ ├── Step_3rd_Prediction_Specificity_Sig_Age.m │ │ ├── Step_3rd_Prediction_Specificity_Sig_EFAccuracy.m │ │ ├── Step_4th_Prediction_ScatterPlot_2Fold_Age.R │ │ ├── Step_4th_Prediction_ScatterPlot_2Fold_EFAccuracy.R │ │ └── Step_5th_PermutationHistogram.R │ └── 2nd_Random_2FCV │ │ ├── Step_1st_Prediction_2Fold_Age_RandomCV.py │ │ ├── Step_1st_Prediction_2Fold_EFAccuracy_RandomCV.py │ │ ├── Step_2nd_Prediction_Specificity_Age_RandomCV.m │ │ ├── Step_2nd_Prediction_Specificity_EFAccuracy_RandomCV.m │ │ ├── Step_3rd_Histogram_Age.R │ │ ├── Step_3rd_Histogram_EFAccuracy.R │ │ ├── Step_4th_Weight_Visualize_Workbench_Age_RandomCV.m │ │ ├── Step_4th_Weight_Visualize_Workbench_EFAccuracy_RandomCV.m │ │ └── Step_5th_Corr_VariabilityWeight │ │ ├── Step_1st_PrepareData_ForSpinTest.R │ │ ├── Step_2nd_SpinTest_PermutationCreate.m │ │ ├── Step_3rd_Data_Extract.m │ │ └── Step_4th_MeanVariability_AgeCognitionEffects_Corr.R ├── AtlasLoading │ ├── 1st_Sorted_2FCV │ │ ├── .Step_10th_Prediction_2Fold_Motion_RegressMotion.py.swp │ │ ├── .Step_3rd_Prediction_Specificity_Sig_Age_2.m.swp │ │ ├── Step_1st_AtlasFeature_SaveMat.m │ │ ├── Step_2nd_Prediction_2Fold_Age.py │ │ ├── Step_2nd_Prediction_2Fold_EFAccuracy.py │ │ ├── Step_3rd_Prediction_Specificity_Sig_Age.m │ │ ├── Step_3rd_Prediction_Specificity_Sig_EFAccuracy.m │ │ ├── Step_4th_Prediction_ScatterPlot_2Fold_Age.R │ │ ├── Step_4th_Prediction_ScatterPlot_2Fold_EFAccuracy.R │ │ └── Step_5th_PermutationHistogram.R │ ├── 2nd_Random_2FCV │ │ ├── Step_1st_Prediction_2Fold_Age_RandomCV.py │ │ ├── Step_1st_Prediction_2Fold_EFAccuracy_RandomCV.py │ │ ├── Step_2nd_Prediction_Specificity_Age_RandomCV.m │ │ ├── Step_2nd_Prediction_Specificity_EFAccuracy_RandomCV.m │ │ ├── Step_3rd_Histogram_Age.R │ │ ├── Step_3rd_Histogram_EFAccuracy.R │ │ ├── Step_4th_Weight_Visualize_Workbench_Age_RandomCV.m │ │ ├── Step_4th_Weight_Visualize_Workbench_EFAccuracy_RandomCV.m │ │ ├── Step_5th_SumWeights_Age.R │ │ ├── Step_5th_SumWeights_EF.R │ │ ├── Step_6th_Loading_AgePredictionWeights_Corr_First25_EachNetwork_PositiveWeight.R │ │ ├── Step_7th_Prediction_2Fold_Memory_RandomCV.py │ │ ├── Step_7th_Prediction_2Fold_Motion_RandomCV.py │ │ ├── Step_7th_Prediction_2Fold_SocialCog_RandomCV.py │ │ ├── Step_8th_Prediction_Specificity_Sig_Memory_RandomCV.m │ │ ├── Step_8th_Prediction_Specificity_Sig_Motion_RandomCV.m │ │ ├── Step_8th_Prediction_Specificity_Sig_SocialCog_RandomCV.m │ │ ├── Step_9th_1_Prediction_10Fold_231LeastMotion.py │ │ └── Step_9th_2_Prediction_Specificity_Sig_231LeastMotion.m │ ├── 3rd_Sorted_2FCV_Validation │ │ ├── Step_1st_AtlasFeature_SaveMat.m │ │ ├── Step_2nd_Prediction_2Fold_Age_Association.py │ │ ├── Step_2nd_Prediction_2Fold_Age_VisualMotor.py │ │ ├── Step_2nd_Prediction_2Fold_EFAccuracy_Association.py │ │ ├── Step_2nd_Prediction_2Fold_EFAccuracy_VisualMotor.py │ │ ├── Step_3rd_Prediction_Specificity_Sig_Age_Association.m │ │ ├── Step_3rd_Prediction_Specificity_Sig_Age_VisualMotor.m │ │ ├── Step_3rd_Prediction_Specificity_Sig_EFAccuracy_Association.m │ │ ├── Step_3rd_Prediction_Specificity_Sig_EFAccuracy_VisualMotor.m │ │ ├── Step_4th_Prediction_ScatterPlot_2Fold_Age_Association.R │ │ ├── Step_4th_Prediction_ScatterPlot_2Fold_Age_VisualMotor.R │ │ ├── Step_4th_Prediction_ScatterPlot_2Fold_EFAccuracy_Association.R │ │ └── Step_4th_Prediction_ScatterPlot_2Fold_EFAccuracy_VisualMotor.R │ └── 4th_Random_2FCV_Validation │ │ ├── Step_1st_AtlasFeature_SaveMat.m │ │ ├── Step_2nd_Prediction_2Fold_Age_Association_RandomCV.py │ │ ├── Step_2nd_Prediction_2Fold_Age_SomatoSensory_RandomCV.py │ │ ├── Step_2nd_Prediction_2Fold_EF_Association_RandomCV.py │ │ ├── Step_2nd_Prediction_2Fold_EF_SomatoSensory_RandomCV.py │ │ ├── Step_3rd_Prediction_Specificity_Sig_Age_Association.m │ │ ├── Step_3rd_Prediction_Specificity_Sig_Age_SomatoSensory.m │ │ ├── Step_3rd_Prediction_Specificity_Sig_EFAccuracy_Association.m │ │ └── Step_3rd_Prediction_Specificity_Sig_EFAccuracy_SomatoSensory.m ├── AtlasLoading_7Networks │ ├── 1st_Sorted_2FCV │ │ ├── Step_1st_AtlasFeature_SaveMat.m │ │ ├── Step_2nd_Prediction_2Fold_Age.py │ │ ├── Step_2nd_Prediction_2Fold_EFAccuracy.py │ │ ├── Step_3rd_Prediction_Specificity_Sig_Age.m │ │ ├── Step_3rd_Prediction_Specificity_Sig_EFAccuracy.m │ │ ├── Step_4th_Prediction_ScatterPlot_2Fold_Age.R │ │ ├── Step_4th_Prediction_ScatterPlot_2Fold_EFAccuracy.R │ │ └── Step_5th_PermutationHistogram.R │ └── 2nd_Random_2FCV │ │ ├── Step_1st_Prediction_2Fold_Age_RandomCV.py │ │ ├── Step_1st_Prediction_2Fold_EFAccuracy_RandomCV.py │ │ ├── Step_2nd_Prediction_Specificity_Age_RandomCV.m │ │ ├── Step_2nd_Prediction_Specificity_EFAccuracy_RandomCV.m │ │ ├── Step_3rd_Histogram_Age.R │ │ ├── Step_3rd_Histogram_EFAccuracy.R │ │ ├── Step_4th_Weight_Visualize_Workbench_Age_RandomCV.m │ │ └── Step_4th_Weight_Visualize_Workbench_EFAccuracy_RandomCV.m └── Step_1st_AgeCognitionPsycho_SaveMat.R └── Step_8th_Corr_Variability_PredictionWeights_EvoMyelinCBF ├── Step_1st_PrepareData_ForSpinTest.R ├── Step_2nd_SpinTest_PermutationCreate.m ├── Step_3rd_Data_Extract.m ├── Step_4th_MeanVariability_AgeCognitionEffects_Corr.R └── Step_5th_Corr_Variability_EvoMyelinCBF.R /Functions/ARIMatrix_TwoAtlas.m: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ZaixuCui/pncSingleFuncParcel/HEAD/Functions/ARIMatrix_TwoAtlas.m 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