Index

_

__init__() (mia_processes.bricks.preprocess.afni.processes.Automask method) (mia_processes.bricks.preprocess.afni.processes.Calc method) (mia_processes.bricks.preprocess.afni.processes.CalcDropTRs method) (mia_processes.bricks.preprocess.afni.processes.Despike method) (mia_processes.bricks.preprocess.afni.processes.FWHMx method) (mia_processes.bricks.preprocess.afni.processes.GCOR method) (mia_processes.bricks.preprocess.afni.processes.OutlierCount method) (mia_processes.bricks.preprocess.afni.processes.QualityIndex method) (mia_processes.bricks.preprocess.afni.processes.RefitDeoblique method) (mia_processes.bricks.preprocess.afni.processes.SkullStrip method) (mia_processes.bricks.preprocess.afni.processes.TShift method) (mia_processes.bricks.preprocess.afni.processes.TStatMean method) (mia_processes.bricks.preprocess.afni.processes.Volreg method) (mia_processes.bricks.preprocess.ants.processes.AffineInitializer method) (mia_processes.bricks.preprocess.ants.processes.ApplyTransforms method) (mia_processes.bricks.preprocess.ants.processes.N4BiasFieldCorrection method) (mia_processes.bricks.preprocess.ants.processes.Registration method) (mia_processes.bricks.preprocess.dipy.processes.ComputeDKI method) (mia_processes.bricks.preprocess.dipy.processes.Denoise method) (mia_processes.bricks.preprocess.freesurfer.processes.Binarize method) (mia_processes.bricks.preprocess.freesurfer.processes.SynthStrip method) (mia_processes.bricks.preprocess.freesurfer.processes.SynthStripMriqc method) (mia_processes.bricks.preprocess.freesurfer.processes.SynthStripMriqc.ConvBlock method) (mia_processes.bricks.preprocess.freesurfer.processes.SynthStripMriqc.StripModel method) (mia_processes.bricks.preprocess.fsl.processes.Bet method) (mia_processes.bricks.preprocess.fsl.processes.BetSurfacesExtraction method) (mia_processes.bricks.preprocess.fsl.processes.ConvertXFM method) (mia_processes.bricks.preprocess.fsl.processes.EpiReg method) (mia_processes.bricks.preprocess.fsl.processes.ExtractROI method) (mia_processes.bricks.preprocess.fsl.processes.FastSegment method) (mia_processes.bricks.preprocess.fsl.processes.Flirt method) (mia_processes.bricks.preprocess.fsl.processes.Smooth method) (mia_processes.bricks.preprocess.mrtrix.processes.ConstrainedSphericalDeconvolution method) (mia_processes.bricks.preprocess.mrtrix.processes.DWIBiasCorrect method) (mia_processes.bricks.preprocess.mrtrix.processes.DWIBrainMask method) (mia_processes.bricks.preprocess.mrtrix.processes.DWICat method) (mia_processes.bricks.preprocess.mrtrix.processes.DWIDenoise method) (mia_processes.bricks.preprocess.mrtrix.processes.DWIExtract method) (mia_processes.bricks.preprocess.mrtrix.processes.DWIPreproc method) (mia_processes.bricks.preprocess.mrtrix.processes.EditingTrack method) (mia_processes.bricks.preprocess.mrtrix.processes.FilteringTrack method) (mia_processes.bricks.preprocess.mrtrix.processes.FitTensor method) (mia_processes.bricks.preprocess.mrtrix.processes.Generate5tt2gmwmi method) (mia_processes.bricks.preprocess.mrtrix.processes.Generate5ttfsl method) (mia_processes.bricks.preprocess.mrtrix.processes.MRCat method) (mia_processes.bricks.preprocess.mrtrix.processes.MRConvert method) (mia_processes.bricks.preprocess.mrtrix.processes.MRDeGibbs method) (mia_processes.bricks.preprocess.mrtrix.processes.MRGridRegrid method) (mia_processes.bricks.preprocess.mrtrix.processes.MRMath method) (mia_processes.bricks.preprocess.mrtrix.processes.MRTransform method) (mia_processes.bricks.preprocess.mrtrix.processes.MTNormalise method) (mia_processes.bricks.preprocess.mrtrix.processes.ResponseSDDhollander method) (mia_processes.bricks.preprocess.mrtrix.processes.ResponseSDTournier method) (mia_processes.bricks.preprocess.mrtrix.processes.SphericalHarmonicExtraction method) (mia_processes.bricks.preprocess.mrtrix.processes.TensorMetrics method) (mia_processes.bricks.preprocess.mrtrix.processes.Tractography method) (mia_processes.bricks.preprocess.mrtrix.processes.TransformFSLConvert method) (mia_processes.bricks.preprocess.others.processing.ApplyBiasCorrection method) (mia_processes.bricks.preprocess.others.processing.ArtifactMask method) (mia_processes.bricks.preprocess.others.processing.Binarize method) (mia_processes.bricks.preprocess.others.processing.ConformImage method) (mia_processes.bricks.preprocess.others.processing.ConvROI method) (mia_processes.bricks.preprocess.others.processing.Enhance method) (mia_processes.bricks.preprocess.others.processing.EstimateSNR method) (mia_processes.bricks.preprocess.others.processing.ExtractROIbyLabel method) (mia_processes.bricks.preprocess.others.processing.ExtractSignalROI method) (mia_processes.bricks.preprocess.others.processing.GradientThreshold method) (mia_processes.bricks.preprocess.others.processing.Harmonize method) (mia_processes.bricks.preprocess.others.processing.IntensityClip method) (mia_processes.bricks.preprocess.others.processing.Mask method) (mia_processes.bricks.preprocess.others.processing.NonSteadyStateDetector method) (mia_processes.bricks.preprocess.others.processing.Resample1 method) (mia_processes.bricks.preprocess.others.processing.Resample2 method) (mia_processes.bricks.preprocess.others.processing.RotationMask method) (mia_processes.bricks.preprocess.others.processing.Sanitize method) (mia_processes.bricks.preprocess.others.processing.TemplateFromTemplateFlow method) (mia_processes.bricks.preprocess.others.processing.Threshold method) (mia_processes.bricks.preprocess.others.processing.TSNR method) (mia_processes.bricks.preprocess.spm.spatial_preprocessing.Coregister method) (mia_processes.bricks.preprocess.spm.spatial_preprocessing.GM_WM_Normalize method) (mia_processes.bricks.preprocess.spm.spatial_preprocessing.NewSegment method) (mia_processes.bricks.preprocess.spm.spatial_preprocessing.Normalize12 method) (mia_processes.bricks.preprocess.spm.spatial_preprocessing.Realign method) (mia_processes.bricks.preprocess.spm.spatial_preprocessing.SliceTiming method) (mia_processes.bricks.preprocess.spm.spatial_preprocessing.Smooth method) (mia_processes.bricks.reports.processes.AnatIQMs method) (mia_processes.bricks.reports.processes.BoldIQMs method) (mia_processes.bricks.reports.processes.BoldIQMsPlot method) (mia_processes.bricks.reports.processes.CarpetParcellation method) (mia_processes.bricks.reports.processes.ComputeDVARS method) (mia_processes.bricks.reports.processes.FramewiseDisplacement method) (mia_processes.bricks.reports.processes.LateralizationIndexCurve method) (mia_processes.bricks.reports.processes.Mean_stdDev_calc method) (mia_processes.bricks.reports.processes.PlotSignalROI method) (mia_processes.bricks.reports.processes.Result_collector method) (mia_processes.bricks.reports.processes.Spikes method) (mia_processes.bricks.reports.reporting.ReportAnatMriqc method) (mia_processes.bricks.reports.reporting.ReportCO2inhalCvr method) (mia_processes.bricks.reports.reporting.ReportFuncMriqc method) (mia_processes.bricks.reports.reporting.ReportGE2REC method) (mia_processes.bricks.reports.reporting.ReportGroupMriqc method) (mia_processes.bricks.reports.reporting.ReportPerfDsc method) (mia_processes.bricks.stat.spm.model.EstimateContrast method) (mia_processes.bricks.stat.spm.model.EstimateModel method) (mia_processes.bricks.stat.spm.model.Level1Design method) (mia_processes.bricks.stat.spm.model.MultipleRegressionDesign method) (mia_processes.bricks.stat.spm.model.OneSampleTTestDesign method) (mia_processes.bricks.stat.spm.model.PairedTTestDesign method) (mia_processes.bricks.stat.spm.model.TwoSampleTTestDesign method) (mia_processes.bricks.tools.tools.Concat_to_list method) (mia_processes.bricks.tools.tools.Concat_to_list_of_list method) (mia_processes.bricks.tools.tools.Deconv_from_aif method) (mia_processes.bricks.tools.tools.Delete_data method) (mia_processes.bricks.tools.tools.Files_To_List method) (mia_processes.bricks.tools.tools.Filter_Files_List method) (mia_processes.bricks.tools.tools.Find_In_List method) (mia_processes.bricks.tools.tools.Get_Conditions_From_BIDS_tsv method) (mia_processes.bricks.tools.tools.Get_Conditions_From_csv method) (mia_processes.bricks.tools.tools.Get_Eprime_Info_GE2REC method) (mia_processes.bricks.tools.tools.Get_Patient_Name method) (mia_processes.bricks.tools.tools.Get_Regressors_From_csv method) (mia_processes.bricks.tools.tools.Import_Data method) (mia_processes.bricks.tools.tools.Input_Filter method) (mia_processes.bricks.tools.tools.List_Duplicate method) (mia_processes.bricks.tools.tools.List_Of_List_To_List method) (mia_processes.bricks.tools.tools.List_To_File method) (mia_processes.bricks.tools.tools.Make_A_List method) (mia_processes.bricks.tools.tools.Make_AIF method) (mia_processes.bricks.tools.tools.Make_CVR_reg_physio method) (mia_processes.process_matlab.ProcessMatlab method) (mia_processes.utils.report.Report method) (mia_processes.utils.tools.PageNumCanvas method) (mia_processes.utils.tools.ReportLine method)

A

add_exit() (mia_processes.process_matlab.ProcessMatlab method) add_path() (mia_processes.process_matlab.ProcessMatlab method) AffineInitializer (class in mia_processes.bricks.preprocess.ants.processes) Anat_airmask (class in mia_processes.pipelines.preprocess.anat_airmask) Anat_headmask (class in mia_processes.pipelines.preprocess.anat_headmask) Anat_mni_tpms (class in mia_processes.pipelines.preprocess.anat_mni_tpms) Anat_mriqc (class in mia_processes.pipelines.qualityControl.anat_mriqc) Anat_skullstrip (class in mia_processes.pipelines.preprocess.anat_skullstrip) Anat_skullstrip_synthstrip (class in mia_processes.pipelines.preprocess.anat_skullstrip_synthstrip)

Anat_spatial_norm (class in mia_processes.pipelines.preprocess.anat_spatial_norm) AnatIQMs (class in mia_processes.bricks.reports.processes) ApplyBiasCorrection (class in mia_processes.bricks.preprocess.others.processing) ApplyTransforms (class in mia_processes.bricks.preprocess.ants.processes) art_qi1() (in module mia_processes.bricks.reports.processes) art_qi2() (in module mia_processes.bricks.reports.processes) artifact_mask() (in module mia_processes.bricks.preprocess.others.processing) ArtifactMask (class in mia_processes.bricks.preprocess.others.processing) Automask (class in mia_processes.bricks.preprocess.afni.processes)

B

Bet (class in mia_processes.bricks.preprocess.fsl.processes) BetSurfacesExtraction (class in mia_processes.bricks.preprocess.fsl.processes) Binarize (class in mia_processes.bricks.preprocess.freesurfer.processes) (class in mia_processes.bricks.preprocess.others.processing) bol_ar_time() (mia_processes.bricks.tools.tools.Deconv_from_aif method) (mia_processes.bricks.tools.tools.Make_AIF method) Bold_hmc (class in mia_processes.pipelines.preprocess.bold_hmc)

Bold_iqms (class in mia_processes.pipelines.reports.bold_iqms) Bold_mni_align (class in mia_processes.pipelines.preprocess.bold_mni_align) Bold_mriqc (class in mia_processes.pipelines.qualityControl.bold_mriqc) Bold_spatial_preprocessing1 (class in mia_processes.pipelines.preprocess.bold_spatial_preprocessing1) Bold_spatial_preprocessing2 (class in mia_processes.pipelines.preprocess.bold_spatial_preprocessing2) Bold_stat_cvr (class in mia_processes.pipelines.stat.bold_stat_cvr) BoldIQMs (class in mia_processes.bricks.reports.processes) BoldIQMsPlot (class in mia_processes.bricks.reports.processes)

C

Calc (class in mia_processes.bricks.preprocess.afni.processes) CalcDropTRs (class in mia_processes.bricks.preprocess.afni.processes) CarpetParcellation (class in mia_processes.bricks.reports.processes) change_directory() (mia_processes.process_matlab.ProcessMatlab method) check_orientations() (in module mia_processes.utils.tools) checkFileExt() (in module mia_processes.utils.tools) cjv() (in module mia_processes.bricks.reports.processes) cnr() (in module mia_processes.bricks.reports.processes) co2_inhal_cvr_make_report() (mia_processes.utils.report.Report method) CO2_inhalation (class in mia_processes.pipelines.CerebVascularReact.co2_inhalation)

ComputeDKI (class in mia_processes.bricks.preprocess.dipy.processes) ComputeDVARS (class in mia_processes.bricks.reports.processes) Concat_to_list (class in mia_processes.bricks.tools.tools) Concat_to_list_of_list (class in mia_processes.bricks.tools.tools) conform() (mia_processes.bricks.preprocess.freesurfer.processes.SynthStripMriqc method) ConformImage (class in mia_processes.bricks.preprocess.others.processing) ConstrainedSphericalDeconvolution (class in mia_processes.bricks.preprocess.mrtrix.processes) convert_to_native_types() (mia_processes.bricks.tools.tools.Make_AIF method) ConvertXFM (class in mia_processes.bricks.preprocess.fsl.processes) ConvROI (class in mia_processes.bricks.preprocess.others.processing) Coregister (class in mia_processes.bricks.preprocess.spm.spatial_preprocessing)

D

Deconv_from_aif (class in mia_processes.bricks.tools.tools) deconv_osvd() (mia_processes.bricks.tools.tools.Deconv_from_aif method) del_dbFieldValue() (in module mia_processes.utils.tools) Delete_data (class in mia_processes.bricks.tools.tools) delta_r2star() (mia_processes.bricks.tools.tools.Deconv_from_aif method) Denoise (class in mia_processes.bricks.preprocess.dipy.processes) Despike (class in mia_processes.bricks.preprocess.afni.processes) dict4runtime_update() (in module mia_processes.utils.tools) display_parameter() (mia_processes.process_matlab.ProcessMatlab method) draw() (mia_processes.utils.tools.ReportLine method)

draw_page_number() (mia_processes.utils.tools.PageNumCanvas method) Dwi_fod_msmt_csd (class in mia_processes.pipelines.preprocess.dwi_fod_msmt_csd) Dwi_preprocessing (class in mia_processes.pipelines.preprocess.dwi_preprocessing) Dwi_whole_brain_tractography (class in mia_processes.pipelines.DWITractography.dwi_whole_brain_tractography) DWIBiasCorrect (class in mia_processes.bricks.preprocess.mrtrix.processes) DWIBrainMask (class in mia_processes.bricks.preprocess.mrtrix.processes) DWICat (class in mia_processes.bricks.preprocess.mrtrix.processes) DWIDenoise (class in mia_processes.bricks.preprocess.mrtrix.processes) DWIExtract (class in mia_processes.bricks.preprocess.mrtrix.processes) DWIPreproc (class in mia_processes.bricks.preprocess.mrtrix.processes)

E

EditingTrack (class in mia_processes.bricks.preprocess.mrtrix.processes) efc() (in module mia_processes.bricks.reports.processes) Enhance (class in mia_processes.bricks.preprocess.others.processing) EpiReg (class in mia_processes.bricks.preprocess.fsl.processes) EstimateContrast (class in mia_processes.bricks.stat.spm.model)

EstimateModel (class in mia_processes.bricks.stat.spm.model) EstimateSNR (class in mia_processes.bricks.preprocess.others.processing) Extract_roi_param (class in mia_processes.pipelines.reports.extract_roi_param) ExtractROI (class in mia_processes.bricks.preprocess.fsl.processes) ExtractROIbyLabel (class in mia_processes.bricks.preprocess.others.processing) ExtractSignalROI (class in mia_processes.bricks.preprocess.others.processing)

F

FastSegment (class in mia_processes.bricks.preprocess.fsl.processes) fber() (in module mia_processes.bricks.reports.processes) Files_To_List (class in mia_processes.bricks.tools.tools) Filter_Files_List (class in mia_processes.bricks.tools.tools) FilteringTrack (class in mia_processes.bricks.preprocess.mrtrix.processes) Find_In_List (class in mia_processes.bricks.tools.tools) find_peaks() (in module mia_processes.bricks.reports.processes)

find_spikes() (in module mia_processes.bricks.reports.processes) FitTensor (class in mia_processes.bricks.preprocess.mrtrix.processes) Flirt (class in mia_processes.bricks.preprocess.fsl.processes) forward() (mia_processes.bricks.preprocess.freesurfer.processes.SynthStripMriqc.ConvBlock method) (mia_processes.bricks.preprocess.freesurfer.processes.SynthStripMriqc.StripModel method) FramewiseDisplacement (class in mia_processes.bricks.reports.processes) fuzzy_jaccard() (in module mia_processes.bricks.reports.processes) FWHMx (class in mia_processes.bricks.preprocess.afni.processes)

G

gaussfir() (mia_processes.bricks.tools.tools.Make_CVR_reg_physio method) GCOR (class in mia_processes.bricks.preprocess.afni.processes) ge2rec_make_report() (mia_processes.utils.report.Report method) Generate5tt2gmwmi (class in mia_processes.bricks.preprocess.mrtrix.processes) Generate5ttfsl (class in mia_processes.bricks.preprocess.mrtrix.processes) Get_Conditions_From_BIDS_tsv (class in mia_processes.bricks.tools.tools) Get_Conditions_From_csv (class in mia_processes.bricks.tools.tools) get_covariates() (in module mia_processes.bricks.stat.spm.model) get_dbFieldValue() (in module mia_processes.utils.tools)

Get_Eprime_Info_GE2REC (class in mia_processes.bricks.tools.tools) get_gitversion() (in module mia_processes.info) get_iqms_data() (mia_processes.utils.report.Report method) Get_Patient_Name (class in mia_processes.bricks.tools.tools) Get_Regressors_From_csv (class in mia_processes.bricks.tools.tools) gfb_conv() (mia_processes.bricks.tools.tools.Make_CVR_reg_physio method) GM_WM_Normalize (class in mia_processes.bricks.preprocess.spm.spatial_preprocessing) GradientThreshold (class in mia_processes.bricks.preprocess.others.processing) gsr() (in module mia_processes.bricks.reports.processes)

H

Harmonize (class in mia_processes.bricks.preprocess.others.processing)

I

image_binary_dilation() (in module mia_processes.bricks.reports.processes) Import_Data (class in mia_processes.bricks.tools.tools)

Input_Filter (class in mia_processes.bricks.tools.tools) IntensityClip (class in mia_processes.bricks.preprocess.others.processing) is_outlier() (in module mia_processes.bricks.preprocess.others.processing)

L

lateralization_index_iter_curves() (in module mia_processes.bricks.reports.processes) LateralizationIndexCurve (class in mia_processes.bricks.reports.processes) Level1Design (class in mia_processes.bricks.stat.spm.model) List_Duplicate (class in mia_processes.bricks.tools.tools) List_Of_List_To_List (class in mia_processes.bricks.tools.tools) list_outputs() (mia_processes.bricks.preprocess.afni.processes.Automask method) (mia_processes.bricks.preprocess.afni.processes.Calc method) (mia_processes.bricks.preprocess.afni.processes.CalcDropTRs method) (mia_processes.bricks.preprocess.afni.processes.Despike method) (mia_processes.bricks.preprocess.afni.processes.FWHMx method) (mia_processes.bricks.preprocess.afni.processes.GCOR method) (mia_processes.bricks.preprocess.afni.processes.OutlierCount method) (mia_processes.bricks.preprocess.afni.processes.QualityIndex method) (mia_processes.bricks.preprocess.afni.processes.RefitDeoblique method) (mia_processes.bricks.preprocess.afni.processes.SkullStrip method) (mia_processes.bricks.preprocess.afni.processes.TShift method) (mia_processes.bricks.preprocess.afni.processes.TStatMean method) (mia_processes.bricks.preprocess.afni.processes.Volreg method) (mia_processes.bricks.preprocess.ants.processes.AffineInitializer method) (mia_processes.bricks.preprocess.ants.processes.ApplyTransforms method) (mia_processes.bricks.preprocess.ants.processes.N4BiasFieldCorrection method) (mia_processes.bricks.preprocess.ants.processes.Registration method) (mia_processes.bricks.preprocess.dipy.processes.ComputeDKI method) (mia_processes.bricks.preprocess.dipy.processes.Denoise method) (mia_processes.bricks.preprocess.freesurfer.processes.Binarize method) (mia_processes.bricks.preprocess.freesurfer.processes.SynthStrip method) (mia_processes.bricks.preprocess.freesurfer.processes.SynthStripMriqc method) (mia_processes.bricks.preprocess.fsl.processes.Bet method) (mia_processes.bricks.preprocess.fsl.processes.BetSurfacesExtraction method) (mia_processes.bricks.preprocess.fsl.processes.ConvertXFM method) (mia_processes.bricks.preprocess.fsl.processes.EpiReg method) (mia_processes.bricks.preprocess.fsl.processes.ExtractROI method) (mia_processes.bricks.preprocess.fsl.processes.FastSegment method) (mia_processes.bricks.preprocess.fsl.processes.Flirt method) (mia_processes.bricks.preprocess.fsl.processes.Smooth method) (mia_processes.bricks.preprocess.mrtrix.processes.ConstrainedSphericalDeconvolution method) (mia_processes.bricks.preprocess.mrtrix.processes.DWIBiasCorrect method) (mia_processes.bricks.preprocess.mrtrix.processes.DWIBrainMask method) (mia_processes.bricks.preprocess.mrtrix.processes.DWICat method) (mia_processes.bricks.preprocess.mrtrix.processes.DWIDenoise method) (mia_processes.bricks.preprocess.mrtrix.processes.DWIExtract method) (mia_processes.bricks.preprocess.mrtrix.processes.DWIPreproc method) (mia_processes.bricks.preprocess.mrtrix.processes.EditingTrack method) (mia_processes.bricks.preprocess.mrtrix.processes.FilteringTrack method) (mia_processes.bricks.preprocess.mrtrix.processes.FitTensor method) (mia_processes.bricks.preprocess.mrtrix.processes.Generate5tt2gmwmi method) (mia_processes.bricks.preprocess.mrtrix.processes.Generate5ttfsl method) (mia_processes.bricks.preprocess.mrtrix.processes.MRCat method) (mia_processes.bricks.preprocess.mrtrix.processes.MRConvert method) (mia_processes.bricks.preprocess.mrtrix.processes.MRDeGibbs method) (mia_processes.bricks.preprocess.mrtrix.processes.MRGridRegrid method) (mia_processes.bricks.preprocess.mrtrix.processes.MRMath method) (mia_processes.bricks.preprocess.mrtrix.processes.MRTransform method) (mia_processes.bricks.preprocess.mrtrix.processes.MTNormalise method) (mia_processes.bricks.preprocess.mrtrix.processes.ResponseSDDhollander method) (mia_processes.bricks.preprocess.mrtrix.processes.ResponseSDTournier method) (mia_processes.bricks.preprocess.mrtrix.processes.SphericalHarmonicExtraction method) (mia_processes.bricks.preprocess.mrtrix.processes.TensorMetrics method) (mia_processes.bricks.preprocess.mrtrix.processes.Tractography method) (mia_processes.bricks.preprocess.mrtrix.processes.TransformFSLConvert method) (mia_processes.bricks.preprocess.others.processing.ApplyBiasCorrection method) (mia_processes.bricks.preprocess.others.processing.ArtifactMask method) (mia_processes.bricks.preprocess.others.processing.Binarize method) (mia_processes.bricks.preprocess.others.processing.ConformImage method) (mia_processes.bricks.preprocess.others.processing.ConvROI method) (mia_processes.bricks.preprocess.others.processing.Enhance method) (mia_processes.bricks.preprocess.others.processing.EstimateSNR method) (mia_processes.bricks.preprocess.others.processing.ExtractROIbyLabel method) (mia_processes.bricks.preprocess.others.processing.ExtractSignalROI method) (mia_processes.bricks.preprocess.others.processing.GradientThreshold method) (mia_processes.bricks.preprocess.others.processing.Harmonize method) (mia_processes.bricks.preprocess.others.processing.IntensityClip method) (mia_processes.bricks.preprocess.others.processing.Mask method) (mia_processes.bricks.preprocess.others.processing.NonSteadyStateDetector method) (mia_processes.bricks.preprocess.others.processing.Resample1 method) (mia_processes.bricks.preprocess.others.processing.Resample2 method) (mia_processes.bricks.preprocess.others.processing.RotationMask method) (mia_processes.bricks.preprocess.others.processing.Sanitize method) (mia_processes.bricks.preprocess.others.processing.TemplateFromTemplateFlow method) (mia_processes.bricks.preprocess.others.processing.Threshold method) (mia_processes.bricks.preprocess.others.processing.TSNR method) (mia_processes.bricks.preprocess.spm.spatial_preprocessing.Coregister method) (mia_processes.bricks.preprocess.spm.spatial_preprocessing.GM_WM_Normalize method) (mia_processes.bricks.preprocess.spm.spatial_preprocessing.NewSegment method) (mia_processes.bricks.preprocess.spm.spatial_preprocessing.Normalize12 method) (mia_processes.bricks.preprocess.spm.spatial_preprocessing.Realign method) (mia_processes.bricks.preprocess.spm.spatial_preprocessing.SliceTiming method) (mia_processes.bricks.preprocess.spm.spatial_preprocessing.Smooth method) (mia_processes.bricks.reports.processes.AnatIQMs method) (mia_processes.bricks.reports.processes.BoldIQMs method) (mia_processes.bricks.reports.processes.BoldIQMsPlot method) (mia_processes.bricks.reports.processes.CarpetParcellation method) (mia_processes.bricks.reports.processes.ComputeDVARS method) (mia_processes.bricks.reports.processes.FramewiseDisplacement method) (mia_processes.bricks.reports.processes.LateralizationIndexCurve method) (mia_processes.bricks.reports.processes.Mean_stdDev_calc method) (mia_processes.bricks.reports.processes.PlotSignalROI method) (mia_processes.bricks.reports.processes.Result_collector method) (mia_processes.bricks.reports.processes.Spikes method) (mia_processes.bricks.reports.reporting.ReportAnatMriqc method) (mia_processes.bricks.reports.reporting.ReportCO2inhalCvr method) (mia_processes.bricks.reports.reporting.ReportFuncMriqc method) (mia_processes.bricks.reports.reporting.ReportGE2REC method) (mia_processes.bricks.reports.reporting.ReportGroupMriqc method) (mia_processes.bricks.reports.reporting.ReportPerfDsc method) (mia_processes.bricks.stat.spm.model.EstimateContrast method) (mia_processes.bricks.stat.spm.model.EstimateModel method) (mia_processes.bricks.stat.spm.model.Level1Design method) (mia_processes.bricks.stat.spm.model.MultipleRegressionDesign method) (mia_processes.bricks.stat.spm.model.OneSampleTTestDesign method) (mia_processes.bricks.stat.spm.model.PairedTTestDesign method) (mia_processes.bricks.stat.spm.model.TwoSampleTTestDesign method) (mia_processes.bricks.tools.tools.Concat_to_list method) (mia_processes.bricks.tools.tools.Concat_to_list_of_list method) (mia_processes.bricks.tools.tools.Deconv_from_aif method) (mia_processes.bricks.tools.tools.Delete_data method) (mia_processes.bricks.tools.tools.Files_To_List method) (mia_processes.bricks.tools.tools.Filter_Files_List method) (mia_processes.bricks.tools.tools.Find_In_List method) (mia_processes.bricks.tools.tools.Get_Conditions_From_BIDS_tsv method) (mia_processes.bricks.tools.tools.Get_Conditions_From_csv method) (mia_processes.bricks.tools.tools.Get_Eprime_Info_GE2REC method) (mia_processes.bricks.tools.tools.Get_Patient_Name method) (mia_processes.bricks.tools.tools.Get_Regressors_From_csv method) (mia_processes.bricks.tools.tools.Import_Data method) (mia_processes.bricks.tools.tools.Input_Filter method) (mia_processes.bricks.tools.tools.List_Duplicate method) (mia_processes.bricks.tools.tools.List_Of_List_To_List method) (mia_processes.bricks.tools.tools.List_To_File method) (mia_processes.bricks.tools.tools.Make_A_List method) (mia_processes.bricks.tools.tools.Make_AIF method) (mia_processes.bricks.tools.tools.Make_CVR_reg_physio method)

List_To_File (class in mia_processes.bricks.tools.tools)

M

Make_A_List (class in mia_processes.bricks.tools.tools) Make_AIF (class in mia_processes.bricks.tools.tools) Make_CVR_reg_physio (class in mia_processes.bricks.tools.tools) Mask (class in mia_processes.bricks.preprocess.others.processing) Mean_stdDev_calc (class in mia_processes.bricks.reports.processes) mia_processes module mia_processes.bricks module mia_processes.bricks.preprocess module mia_processes.bricks.preprocess.afni module mia_processes.bricks.preprocess.afni.processes module mia_processes.bricks.preprocess.ants module mia_processes.bricks.preprocess.ants.processes module mia_processes.bricks.preprocess.dipy module mia_processes.bricks.preprocess.dipy.processes module mia_processes.bricks.preprocess.freesurfer module mia_processes.bricks.preprocess.freesurfer.processes module mia_processes.bricks.preprocess.fsl module mia_processes.bricks.preprocess.fsl.processes module mia_processes.bricks.preprocess.mrtrix module mia_processes.bricks.preprocess.mrtrix.processes module mia_processes.bricks.preprocess.others module mia_processes.bricks.preprocess.others.processing module mia_processes.bricks.preprocess.spm module mia_processes.bricks.preprocess.spm.spatial_preprocessing module mia_processes.bricks.reports module mia_processes.bricks.reports.processes module mia_processes.bricks.reports.reporting module mia_processes.bricks.stat module mia_processes.bricks.stat.spm module mia_processes.bricks.stat.spm.model module mia_processes.bricks.tools module mia_processes.bricks.tools.tools module mia_processes.info module mia_processes.pipelines module mia_processes.pipelines.CerebVascularReact module mia_processes.pipelines.CerebVascularReact.co2_inhalation module mia_processes.pipelines.DWITractography module mia_processes.pipelines.DWITractography.dwi_whole_brain_tractography module mia_processes.pipelines.preprocess module mia_processes.pipelines.preprocess.anat_airmask module mia_processes.pipelines.preprocess.anat_headmask module mia_processes.pipelines.preprocess.anat_mni_tpms module mia_processes.pipelines.preprocess.anat_skullstrip module mia_processes.pipelines.preprocess.anat_skullstrip_synthstrip module mia_processes.pipelines.preprocess.anat_spatial_norm module mia_processes.pipelines.preprocess.bold_hmc module mia_processes.pipelines.preprocess.bold_mni_align module mia_processes.pipelines.preprocess.bold_spatial_preprocessing1 module mia_processes.pipelines.preprocess.bold_spatial_preprocessing2 module mia_processes.pipelines.preprocess.dwi_fod_msmt_csd module mia_processes.pipelines.preprocess.dwi_preprocessing module mia_processes.pipelines.preprocess.spatial_mask module

mia_processes.pipelines.qualityControl module mia_processes.pipelines.qualityControl.anat_mriqc module mia_processes.pipelines.qualityControl.bold_mriqc module mia_processes.pipelines.reports module mia_processes.pipelines.reports.bold_iqms module mia_processes.pipelines.reports.extract_roi_param module mia_processes.pipelines.stat module mia_processes.pipelines.stat.bold_stat_cvr module mia_processes.process_matlab module mia_processes.utils module mia_processes.utils.report module mia_processes.utils.tools module module mia_processes mia_processes.bricks mia_processes.bricks.preprocess mia_processes.bricks.preprocess.afni mia_processes.bricks.preprocess.afni.processes mia_processes.bricks.preprocess.ants mia_processes.bricks.preprocess.ants.processes mia_processes.bricks.preprocess.dipy mia_processes.bricks.preprocess.dipy.processes mia_processes.bricks.preprocess.freesurfer mia_processes.bricks.preprocess.freesurfer.processes mia_processes.bricks.preprocess.fsl mia_processes.bricks.preprocess.fsl.processes mia_processes.bricks.preprocess.mrtrix mia_processes.bricks.preprocess.mrtrix.processes mia_processes.bricks.preprocess.others mia_processes.bricks.preprocess.others.processing mia_processes.bricks.preprocess.spm mia_processes.bricks.preprocess.spm.spatial_preprocessing mia_processes.bricks.reports mia_processes.bricks.reports.processes mia_processes.bricks.reports.reporting mia_processes.bricks.stat mia_processes.bricks.stat.spm mia_processes.bricks.stat.spm.model mia_processes.bricks.tools mia_processes.bricks.tools.tools mia_processes.info mia_processes.pipelines mia_processes.pipelines.CerebVascularReact mia_processes.pipelines.CerebVascularReact.co2_inhalation mia_processes.pipelines.DWITractography mia_processes.pipelines.DWITractography.dwi_whole_brain_tractography mia_processes.pipelines.preprocess mia_processes.pipelines.preprocess.anat_airmask mia_processes.pipelines.preprocess.anat_headmask mia_processes.pipelines.preprocess.anat_mni_tpms mia_processes.pipelines.preprocess.anat_skullstrip mia_processes.pipelines.preprocess.anat_skullstrip_synthstrip mia_processes.pipelines.preprocess.anat_spatial_norm mia_processes.pipelines.preprocess.bold_hmc mia_processes.pipelines.preprocess.bold_mni_align mia_processes.pipelines.preprocess.bold_spatial_preprocessing1 mia_processes.pipelines.preprocess.bold_spatial_preprocessing2 mia_processes.pipelines.preprocess.dwi_fod_msmt_csd mia_processes.pipelines.preprocess.dwi_preprocessing mia_processes.pipelines.preprocess.spatial_mask mia_processes.pipelines.qualityControl mia_processes.pipelines.qualityControl.anat_mriqc mia_processes.pipelines.qualityControl.bold_mriqc mia_processes.pipelines.reports mia_processes.pipelines.reports.bold_iqms mia_processes.pipelines.reports.extract_roi_param mia_processes.pipelines.stat mia_processes.pipelines.stat.bold_stat_cvr mia_processes.process_matlab mia_processes.utils mia_processes.utils.report mia_processes.utils.tools MRCat (class in mia_processes.bricks.preprocess.mrtrix.processes) MRConvert (class in mia_processes.bricks.preprocess.mrtrix.processes) MRDeGibbs (class in mia_processes.bricks.preprocess.mrtrix.processes) MRGridRegrid (class in mia_processes.bricks.preprocess.mrtrix.processes) mriqc_anat_make_report() (mia_processes.utils.report.Report method) mriqc_func_make_report() (mia_processes.utils.report.Report method) mriqc_get_all_run() (in module mia_processes.utils.tools) mriqc_group_iqms_tsv() (in module mia_processes.utils.tools) mriqc_group_make_report() (mia_processes.utils.report.Report method) MRMath (class in mia_processes.bricks.preprocess.mrtrix.processes) MRTransform (class in mia_processes.bricks.preprocess.mrtrix.processes) MTNormalise (class in mia_processes.bricks.preprocess.mrtrix.processes) MultipleRegressionDesign (class in mia_processes.bricks.stat.spm.model)

N

N4BiasFieldCorrection (class in mia_processes.bricks.preprocess.ants.processes) NewSegment (class in mia_processes.bricks.preprocess.spm.spatial_preprocessing)

NonSteadyStateDetector (class in mia_processes.bricks.preprocess.others.processing) Normalize12 (class in mia_processes.bricks.preprocess.spm.spatial_preprocessing) normalize_mc_params() (in module mia_processes.bricks.reports.processes)

O

OneSampleTTestDesign (class in mia_processes.bricks.stat.spm.model)

OutlierCount (class in mia_processes.bricks.preprocess.afni.processes)

P

PageNumCanvas (class in mia_processes.utils.tools) PairedTTestDesign (class in mia_processes.bricks.stat.spm.model) perf_dsc_make_report() (mia_processes.utils.report.Report method) pipeline_definition() (mia_processes.pipelines.CerebVascularReact.co2_inhalation.CO2_inhalation method) (mia_processes.pipelines.DWITractography.dwi_whole_brain_tractography.Dwi_whole_brain_tractography method) (mia_processes.pipelines.preprocess.anat_airmask.Anat_airmask method) (mia_processes.pipelines.preprocess.anat_headmask.Anat_headmask method) (mia_processes.pipelines.preprocess.anat_mni_tpms.Anat_mni_tpms method) (mia_processes.pipelines.preprocess.anat_skullstrip.Anat_skullstrip method) (mia_processes.pipelines.preprocess.anat_skullstrip_synthstrip.Anat_skullstrip_synthstrip method) (mia_processes.pipelines.preprocess.anat_spatial_norm.Anat_spatial_norm method) (mia_processes.pipelines.preprocess.bold_hmc.Bold_hmc method) (mia_processes.pipelines.preprocess.bold_mni_align.Bold_mni_align method) (mia_processes.pipelines.preprocess.bold_spatial_preprocessing1.Bold_spatial_preprocessing1 method) (mia_processes.pipelines.preprocess.bold_spatial_preprocessing2.Bold_spatial_preprocessing2 method) (mia_processes.pipelines.preprocess.dwi_fod_msmt_csd.Dwi_fod_msmt_csd method) (mia_processes.pipelines.preprocess.dwi_preprocessing.Dwi_preprocessing method) (mia_processes.pipelines.preprocess.spatial_mask.Spatial_mask method) (mia_processes.pipelines.qualityControl.anat_mriqc.Anat_mriqc method) (mia_processes.pipelines.qualityControl.bold_mriqc.Bold_mriqc method) (mia_processes.pipelines.reports.bold_iqms.Bold_iqms method) (mia_processes.pipelines.reports.extract_roi_param.Extract_roi_param method) (mia_processes.pipelines.stat.bold_stat_cvr.Bold_stat_cvr method)

plot_boxplot_points() (in module mia_processes.utils.tools) plot_qi2() (in module mia_processes.utils.tools) plot_realignment_parameters() (in module mia_processes.utils.tools) plot_segmentation() (in module mia_processes.utils.tools) plot_slice_planes() (in module mia_processes.utils.tools) PlotSignalROI (class in mia_processes.bricks.reports.processes) ProcessMatlab (class in mia_processes.process_matlab)

Q

QualityIndex (class in mia_processes.bricks.preprocess.afni.processes)

R

Realign (class in mia_processes.bricks.preprocess.spm.spatial_preprocessing) RefitDeoblique (class in mia_processes.bricks.preprocess.afni.processes) Registration (class in mia_processes.bricks.preprocess.ants.processes) regress_poly() (in module mia_processes.bricks.reports.processes) Report (class in mia_processes.utils.report) ReportAnatMriqc (class in mia_processes.bricks.reports.reporting) ReportCO2inhalCvr (class in mia_processes.bricks.reports.reporting) ReportFuncMriqc (class in mia_processes.bricks.reports.reporting) ReportGE2REC (class in mia_processes.bricks.reports.reporting) ReportGroupMriqc (class in mia_processes.bricks.reports.reporting) ReportLine (class in mia_processes.utils.tools) ReportPerfDsc (class in mia_processes.bricks.reports.reporting) Resample1 (class in mia_processes.bricks.preprocess.others.processing) Resample2 (class in mia_processes.bricks.preprocess.others.processing) resample_like() (mia_processes.bricks.preprocess.freesurfer.processes.SynthStripMriqc method) ResponseSDDhollander (class in mia_processes.bricks.preprocess.mrtrix.processes) ResponseSDTournier (class in mia_processes.bricks.preprocess.mrtrix.processes) Result_collector (class in mia_processes.bricks.reports.processes) RotationMask (class in mia_processes.bricks.preprocess.others.processing) round_half_up() (mia_processes.bricks.tools.tools.Deconv_from_aif method) rpve() (in module mia_processes.bricks.reports.processes) run() (mia_processes.process_matlab.ProcessMatlab method) run_process_mia() (mia_processes.bricks.preprocess.afni.processes.Automask method) (mia_processes.bricks.preprocess.afni.processes.Calc method) (mia_processes.bricks.preprocess.afni.processes.CalcDropTRs method) (mia_processes.bricks.preprocess.afni.processes.Despike method) (mia_processes.bricks.preprocess.afni.processes.FWHMx method) (mia_processes.bricks.preprocess.afni.processes.GCOR method) (mia_processes.bricks.preprocess.afni.processes.OutlierCount method) (mia_processes.bricks.preprocess.afni.processes.QualityIndex method) (mia_processes.bricks.preprocess.afni.processes.RefitDeoblique method) (mia_processes.bricks.preprocess.afni.processes.SkullStrip method) (mia_processes.bricks.preprocess.afni.processes.TShift method) (mia_processes.bricks.preprocess.afni.processes.TStatMean method) (mia_processes.bricks.preprocess.afni.processes.Volreg method) (mia_processes.bricks.preprocess.ants.processes.AffineInitializer method) (mia_processes.bricks.preprocess.ants.processes.ApplyTransforms method) (mia_processes.bricks.preprocess.ants.processes.N4BiasFieldCorrection method) (mia_processes.bricks.preprocess.ants.processes.Registration method) (mia_processes.bricks.preprocess.dipy.processes.ComputeDKI method) (mia_processes.bricks.preprocess.dipy.processes.Denoise method) (mia_processes.bricks.preprocess.freesurfer.processes.Binarize method) (mia_processes.bricks.preprocess.freesurfer.processes.SynthStrip method) (mia_processes.bricks.preprocess.freesurfer.processes.SynthStripMriqc method) (mia_processes.bricks.preprocess.fsl.processes.Bet method) (mia_processes.bricks.preprocess.fsl.processes.BetSurfacesExtraction method) (mia_processes.bricks.preprocess.fsl.processes.ConvertXFM method) (mia_processes.bricks.preprocess.fsl.processes.EpiReg method) (mia_processes.bricks.preprocess.fsl.processes.ExtractROI method) (mia_processes.bricks.preprocess.fsl.processes.FastSegment method) (mia_processes.bricks.preprocess.fsl.processes.Flirt method) (mia_processes.bricks.preprocess.fsl.processes.Smooth method) (mia_processes.bricks.preprocess.mrtrix.processes.ConstrainedSphericalDeconvolution method) (mia_processes.bricks.preprocess.mrtrix.processes.DWIBiasCorrect method) (mia_processes.bricks.preprocess.mrtrix.processes.DWIBrainMask method) (mia_processes.bricks.preprocess.mrtrix.processes.DWICat method) (mia_processes.bricks.preprocess.mrtrix.processes.DWIDenoise method) (mia_processes.bricks.preprocess.mrtrix.processes.DWIExtract method) (mia_processes.bricks.preprocess.mrtrix.processes.DWIPreproc method) (mia_processes.bricks.preprocess.mrtrix.processes.EditingTrack method) (mia_processes.bricks.preprocess.mrtrix.processes.FilteringTrack method) (mia_processes.bricks.preprocess.mrtrix.processes.FitTensor method) (mia_processes.bricks.preprocess.mrtrix.processes.Generate5tt2gmwmi method) (mia_processes.bricks.preprocess.mrtrix.processes.Generate5ttfsl method) (mia_processes.bricks.preprocess.mrtrix.processes.MRCat method) (mia_processes.bricks.preprocess.mrtrix.processes.MRConvert method) (mia_processes.bricks.preprocess.mrtrix.processes.MRDeGibbs method) (mia_processes.bricks.preprocess.mrtrix.processes.MRGridRegrid method) (mia_processes.bricks.preprocess.mrtrix.processes.MRMath method) (mia_processes.bricks.preprocess.mrtrix.processes.MRTransform method) (mia_processes.bricks.preprocess.mrtrix.processes.MTNormalise method) (mia_processes.bricks.preprocess.mrtrix.processes.ResponseSDDhollander method) (mia_processes.bricks.preprocess.mrtrix.processes.ResponseSDTournier method) (mia_processes.bricks.preprocess.mrtrix.processes.SphericalHarmonicExtraction method) (mia_processes.bricks.preprocess.mrtrix.processes.TensorMetrics method) (mia_processes.bricks.preprocess.mrtrix.processes.Tractography method) (mia_processes.bricks.preprocess.mrtrix.processes.TransformFSLConvert method) (mia_processes.bricks.preprocess.others.processing.ApplyBiasCorrection method) (mia_processes.bricks.preprocess.others.processing.ArtifactMask method) (mia_processes.bricks.preprocess.others.processing.Binarize method) (mia_processes.bricks.preprocess.others.processing.ConformImage method) (mia_processes.bricks.preprocess.others.processing.ConvROI method) (mia_processes.bricks.preprocess.others.processing.Enhance method) (mia_processes.bricks.preprocess.others.processing.EstimateSNR method) (mia_processes.bricks.preprocess.others.processing.ExtractROIbyLabel method) (mia_processes.bricks.preprocess.others.processing.ExtractSignalROI method) (mia_processes.bricks.preprocess.others.processing.GradientThreshold method) (mia_processes.bricks.preprocess.others.processing.Harmonize method) (mia_processes.bricks.preprocess.others.processing.IntensityClip method) (mia_processes.bricks.preprocess.others.processing.Mask method) (mia_processes.bricks.preprocess.others.processing.NonSteadyStateDetector method) (mia_processes.bricks.preprocess.others.processing.Resample1 method) (mia_processes.bricks.preprocess.others.processing.Resample2 method) (mia_processes.bricks.preprocess.others.processing.RotationMask method) (mia_processes.bricks.preprocess.others.processing.Sanitize method) (mia_processes.bricks.preprocess.others.processing.TemplateFromTemplateFlow method) (mia_processes.bricks.preprocess.others.processing.Threshold method) (mia_processes.bricks.preprocess.others.processing.TSNR method) (mia_processes.bricks.preprocess.spm.spatial_preprocessing.Coregister method) (mia_processes.bricks.preprocess.spm.spatial_preprocessing.GM_WM_Normalize method) (mia_processes.bricks.preprocess.spm.spatial_preprocessing.NewSegment method) (mia_processes.bricks.preprocess.spm.spatial_preprocessing.Normalize12 method) (mia_processes.bricks.preprocess.spm.spatial_preprocessing.Realign method) (mia_processes.bricks.preprocess.spm.spatial_preprocessing.SliceTiming method) (mia_processes.bricks.preprocess.spm.spatial_preprocessing.Smooth method) (mia_processes.bricks.reports.processes.AnatIQMs method) (mia_processes.bricks.reports.processes.BoldIQMs method) (mia_processes.bricks.reports.processes.BoldIQMsPlot method) (mia_processes.bricks.reports.processes.CarpetParcellation method) (mia_processes.bricks.reports.processes.ComputeDVARS method) (mia_processes.bricks.reports.processes.FramewiseDisplacement method) (mia_processes.bricks.reports.processes.LateralizationIndexCurve method) (mia_processes.bricks.reports.processes.Mean_stdDev_calc method) (mia_processes.bricks.reports.processes.PlotSignalROI method) (mia_processes.bricks.reports.processes.Result_collector method) (mia_processes.bricks.reports.processes.Spikes method) (mia_processes.bricks.reports.reporting.ReportAnatMriqc method) (mia_processes.bricks.reports.reporting.ReportCO2inhalCvr method) (mia_processes.bricks.reports.reporting.ReportFuncMriqc method) (mia_processes.bricks.reports.reporting.ReportGE2REC method) (mia_processes.bricks.reports.reporting.ReportGroupMriqc method) (mia_processes.bricks.reports.reporting.ReportPerfDsc method) (mia_processes.bricks.stat.spm.model.EstimateContrast method) (mia_processes.bricks.stat.spm.model.EstimateModel method) (mia_processes.bricks.stat.spm.model.Level1Design method) (mia_processes.bricks.stat.spm.model.MultipleRegressionDesign method) (mia_processes.bricks.stat.spm.model.OneSampleTTestDesign method) (mia_processes.bricks.stat.spm.model.PairedTTestDesign method) (mia_processes.bricks.stat.spm.model.TwoSampleTTestDesign method) (mia_processes.bricks.tools.tools.Concat_to_list method) (mia_processes.bricks.tools.tools.Concat_to_list_of_list method) (mia_processes.bricks.tools.tools.Deconv_from_aif method) (mia_processes.bricks.tools.tools.Delete_data method) (mia_processes.bricks.tools.tools.Files_To_List method) (mia_processes.bricks.tools.tools.Filter_Files_List method) (mia_processes.bricks.tools.tools.Find_In_List method) (mia_processes.bricks.tools.tools.Get_Conditions_From_BIDS_tsv method) (mia_processes.bricks.tools.tools.Get_Conditions_From_csv method) (mia_processes.bricks.tools.tools.Get_Eprime_Info_GE2REC method) (mia_processes.bricks.tools.tools.Get_Patient_Name method) (mia_processes.bricks.tools.tools.Get_Regressors_From_csv method) (mia_processes.bricks.tools.tools.Import_Data method) (mia_processes.bricks.tools.tools.Input_Filter method) (mia_processes.bricks.tools.tools.List_Duplicate method) (mia_processes.bricks.tools.tools.List_Of_List_To_List method) (mia_processes.bricks.tools.tools.List_To_File method) (mia_processes.bricks.tools.tools.Make_A_List method) (mia_processes.bricks.tools.tools.Make_AIF method) (mia_processes.bricks.tools.tools.Make_CVR_reg_physio method)

S

Sanitize (class in mia_processes.bricks.preprocess.others.processing) save() (mia_processes.utils.tools.PageNumCanvas method) set_dbFieldValue() (in module mia_processes.utils.tools) set_global_variable() (mia_processes.process_matlab.ProcessMatlab method) set_variable() (mia_processes.process_matlab.ProcessMatlab method) showPage() (mia_processes.utils.tools.PageNumCanvas method) SkullStrip (class in mia_processes.bricks.preprocess.afni.processes) SliceTiming (class in mia_processes.bricks.preprocess.spm.spatial_preprocessing) Smooth (class in mia_processes.bricks.preprocess.fsl.processes) (class in mia_processes.bricks.preprocess.spm.spatial_preprocessing)

snr() (in module mia_processes.bricks.reports.processes) snr_dietrich() (in module mia_processes.bricks.reports.processes) Spatial_mask (class in mia_processes.pipelines.preprocess.spatial_mask) SphericalHarmonicExtraction (class in mia_processes.bricks.preprocess.mrtrix.processes) Spikes (class in mia_processes.bricks.reports.processes) spm_hrf() (mia_processes.bricks.tools.tools.Make_CVR_reg_physio method) summary_stats() (in module mia_processes.bricks.reports.processes) SynthStrip (class in mia_processes.bricks.preprocess.freesurfer.processes) SynthStripMriqc (class in mia_processes.bricks.preprocess.freesurfer.processes) SynthStripMriqc.ConvBlock (class in mia_processes.bricks.preprocess.freesurfer.processes) SynthStripMriqc.StripModel (class in mia_processes.bricks.preprocess.freesurfer.processes)

T

TemplateFromTemplateFlow (class in mia_processes.bricks.preprocess.others.processing) TensorMetrics (class in mia_processes.bricks.preprocess.mrtrix.processes) Threshold (class in mia_processes.bricks.preprocess.others.processing) threshold() (in module mia_processes.bricks.preprocess.others.processing) Tractography (class in mia_processes.bricks.preprocess.mrtrix.processes) training (mia_processes.bricks.preprocess.freesurfer.processes.SynthStripMriqc.ConvBlock attribute) (mia_processes.bricks.preprocess.freesurfer.processes.SynthStripMriqc.StripModel attribute)

TransformFSLConvert (class in mia_processes.bricks.preprocess.mrtrix.processes) TShift (class in mia_processes.bricks.preprocess.afni.processes) TSNR (class in mia_processes.bricks.preprocess.others.processing) TStatMean (class in mia_processes.bricks.preprocess.afni.processes) TwoSampleTTestDesign (class in mia_processes.bricks.stat.spm.model)

V

Volreg (class in mia_processes.bricks.preprocess.afni.processes)

volume_fraction() (in module mia_processes.bricks.reports.processes)

W

wm2max() (in module mia_processes.bricks.reports.processes)