mia_processes.bricks package

Contains:

Packages:

• preprocess: bricks used in the pre-treatment stage

• reports: bricks used in the reports generation

• stat: bricks used in the statistical calculation stage

• tools: various bricks used as tools

Subpackages

• mia_processes.bricks.preprocess package
  • Subpackages
    • mia_processes.bricks.preprocess.afni package
      • Submodules
      • mia_processes.bricks.preprocess.afni.processes module
    • mia_processes.bricks.preprocess.ants package
      • Submodules
      • mia_processes.bricks.preprocess.ants.processes module
    • mia_processes.bricks.preprocess.dipy package
      • Submodules
      • mia_processes.bricks.preprocess.dipy.processes module
    • mia_processes.bricks.preprocess.freesurfer package
      • Submodules
      • mia_processes.bricks.preprocess.freesurfer.processes module
    • mia_processes.bricks.preprocess.fsl package
      • Submodules
      • mia_processes.bricks.preprocess.fsl.processes module
    • mia_processes.bricks.preprocess.mrtrix package
      • Submodules
      • mia_processes.bricks.preprocess.mrtrix.processes module
    • mia_processes.bricks.preprocess.others package
      • Submodules
      • mia_processes.bricks.preprocess.others.processing module
    • mia_processes.bricks.preprocess.spm package
      • Submodules
      • mia_processes.bricks.preprocess.spm.spatial_preprocessing module
• mia_processes.bricks.reports package
  • Submodules
  • mia_processes.bricks.reports.processes module
    • AnatIQMs
      • AnatIQMs.__init__()
      • AnatIQMs.list_outputs()
      • AnatIQMs.run_process_mia()
    • BoldIQMs
      • BoldIQMs.__init__()
      • BoldIQMs.list_outputs()
      • BoldIQMs.run_process_mia()
    • BoldIQMsPlot
      • BoldIQMsPlot.__init__()
      • BoldIQMsPlot.list_outputs()
      • BoldIQMsPlot.run_process_mia()
    • CarpetParcellation
      • CarpetParcellation.__init__()
      • CarpetParcellation.list_outputs()
      • CarpetParcellation.run_process_mia()
    • ComputeDVARS
      • ComputeDVARS.__init__()
      • ComputeDVARS.list_outputs()
      • ComputeDVARS.run_process_mia()
    • FramewiseDisplacement
      • FramewiseDisplacement.__init__()
      • FramewiseDisplacement.list_outputs()
      • FramewiseDisplacement.run_process_mia()
    • LateralizationIndexCurve
      • LateralizationIndexCurve.__init__()
      • LateralizationIndexCurve.list_outputs()
      • LateralizationIndexCurve.run_process_mia()
    • Mean_stdDev_calc
      • Mean_stdDev_calc.__init__()
      • Mean_stdDev_calc.list_outputs()
      • Mean_stdDev_calc.run_process_mia()
    • PlotSignalROI
      • PlotSignalROI.__init__()
      • PlotSignalROI.list_outputs()
      • PlotSignalROI.run_process_mia()
    • Result_collector
      • Result_collector.__init__()
      • Result_collector.list_outputs()
      • Result_collector.run_process_mia()
    • Spikes
      • Spikes.__init__()
      • Spikes.list_outputs()
      • Spikes.run_process_mia()
    • art_qi1()
    • art_qi2()
    • cjv()
    • cnr()
    • efc()
    • fber()
    • find_peaks()
    • find_spikes()
    • fuzzy_jaccard()
    • gsr()
    • image_binary_dilation()
    • lateralization_index_iter_curves()
    • normalize_mc_params()
    • regress_poly()
    • rpve()
    • snr()
    • snr_dietrich()
    • summary_stats()
    • volume_fraction()
    • wm2max()
  • mia_processes.bricks.reports.reporting module
    • ReportAnatMriqc
      • ReportAnatMriqc.__init__()
      • ReportAnatMriqc.list_outputs()
      • ReportAnatMriqc.run_process_mia()
    • ReportCO2inhalCvr
      • ReportCO2inhalCvr.__init__()
      • ReportCO2inhalCvr.list_outputs()
      • ReportCO2inhalCvr.run_process_mia()
    • ReportFuncMriqc
      • ReportFuncMriqc.__init__()
      • ReportFuncMriqc.list_outputs()
      • ReportFuncMriqc.run_process_mia()
    • ReportGE2REC
      • ReportGE2REC.__init__()
      • ReportGE2REC.list_outputs()
      • ReportGE2REC.run_process_mia()
    • ReportGroupMriqc
      • ReportGroupMriqc.__init__()
      • ReportGroupMriqc.list_outputs()
      • ReportGroupMriqc.run_process_mia()
    • ReportPerfDsc
      • ReportPerfDsc.__init__()
      • ReportPerfDsc.list_outputs()
      • ReportPerfDsc.run_process_mia()
• mia_processes.bricks.stat package
  • Subpackages
    • mia_processes.bricks.stat.spm package
      • Submodules
      • mia_processes.bricks.stat.spm.model module
• mia_processes.bricks.tools package
  • Submodules
  • mia_processes.bricks.tools.tools module
    • Concat_to_list
      • Concat_to_list.__init__()
      • Concat_to_list.list_outputs()
      • Concat_to_list.run_process_mia()
    • Concat_to_list_of_list
      • Concat_to_list_of_list.__init__()
      • Concat_to_list_of_list.list_outputs()
      • Concat_to_list_of_list.run_process_mia()
    • Deconv_from_aif
      • Deconv_from_aif.__init__()
      • Deconv_from_aif.bol_ar_time()
      • Deconv_from_aif.deconv_osvd()
      • Deconv_from_aif.delta_r2star()
      • Deconv_from_aif.list_outputs()
      • Deconv_from_aif.round_half_up()
      • Deconv_from_aif.run_process_mia()
    • Delete_data
      • Delete_data.__init__()
      • Delete_data.list_outputs()
      • Delete_data.run_process_mia()
    • Files_To_List
      • Files_To_List.__init__()
      • Files_To_List.list_outputs()
      • Files_To_List.run_process_mia()
    • Filter_Files_List
      • Filter_Files_List.__init__()
      • Filter_Files_List.list_outputs()
      • Filter_Files_List.run_process_mia()
    • Find_In_List
      • Find_In_List.__init__()
      • Find_In_List.list_outputs()
      • Find_In_List.run_process_mia()
    • Get_Conditions_From_BIDS_tsv
      • Get_Conditions_From_BIDS_tsv.__init__()
      • Get_Conditions_From_BIDS_tsv.list_outputs()
      • Get_Conditions_From_BIDS_tsv.run_process_mia()
    • Get_Conditions_From_csv
      • Get_Conditions_From_csv.__init__()
      • Get_Conditions_From_csv.list_outputs()
      • Get_Conditions_From_csv.run_process_mia()
    • Get_Eprime_Info_GE2REC
      • Get_Eprime_Info_GE2REC.__init__()
      • Get_Eprime_Info_GE2REC.list_outputs()
      • Get_Eprime_Info_GE2REC.run_process_mia()
    • Get_Patient_Name
      • Get_Patient_Name.__init__()
      • Get_Patient_Name.list_outputs()
      • Get_Patient_Name.run_process_mia()
    • Get_Regressors_From_csv
      • Get_Regressors_From_csv.__init__()
      • Get_Regressors_From_csv.list_outputs()
      • Get_Regressors_From_csv.run_process_mia()
    • Import_Data
      • Import_Data.__init__()
      • Import_Data.list_outputs()
      • Import_Data.run_process_mia()
    • Input_Filter
      • Input_Filter.__init__()
      • Input_Filter.list_outputs()
      • Input_Filter.run_process_mia()
    • List_Duplicate
      • List_Duplicate.__init__()
      • List_Duplicate.list_outputs()
      • List_Duplicate.run_process_mia()
    • List_Of_List_To_List
      • List_Of_List_To_List.__init__()
      • List_Of_List_To_List.list_outputs()
      • List_Of_List_To_List.run_process_mia()
    • List_To_File
      • List_To_File.__init__()
      • List_To_File.list_outputs()
      • List_To_File.run_process_mia()
    • Make_AIF
      • Make_AIF.__init__()
      • Make_AIF.bol_ar_time()
      • Make_AIF.convert_to_native_types()
      • Make_AIF.list_outputs()
      • Make_AIF.run_process_mia()
    • Make_A_List
      • Make_A_List.__init__()
      • Make_A_List.list_outputs()
      • Make_A_List.run_process_mia()
    • Make_CVR_reg_physio
      • Make_CVR_reg_physio.__init__()
      • Make_CVR_reg_physio.gaussfir()
      • Make_CVR_reg_physio.gfb_conv()
      • Make_CVR_reg_physio.list_outputs()
      • Make_CVR_reg_physio.run_process_mia()
      • Make_CVR_reg_physio.spm_hrf()