Index

A

aahn18b (cerr.imrtp.dosecalc.qib_data.QIBDataS attribute) (cerr.imrtp.dosecalc.QIBDataS attribute) aahn6b (cerr.imrtp.dosecalc.qib_data.QIBDataS attribute) (cerr.imrtp.dosecalc.QIBDataS attribute) aapmtom() (in module cerr.contour.rasterseg) accumulate() (in module cerr.dvh) acquisitionDate (cerr.dataclasses.scan_info.ScanInfo attribute), [1] acquisitionTime (cerr.dataclasses.scan_info.ScanInfo attribute), [1] addContentInformation() (in module cerr.dcm_export.reg_iod) addContentTags() (in module cerr.dcm_export.iod_helper) addEquipmentTags() (in module cerr.dcm_export.iod_helper) addEquispacedBeams() (in module cerr.imrtp.imrtp_problem) addGeneralImageTags() (in module cerr.dcm_export.iod_helper) addGoal() (cerr.imrtp.imrtp_gui.IMRTPGuiWindow method) (in module cerr.imrtp.imrtp_problem) addImagePixelTags() (in module cerr.dcm_export.iod_helper) addImagePlaneTags() (in module cerr.dcm_export.iod_helper) addPatientInformation() (in module cerr.dcm_export.reg_iod) addPatientTags() (in module cerr.dcm_export.iod_helper) addRefFORTags() (in module cerr.dcm_export.iod_helper) addRefSeriesSequence() (in module cerr.dcm_export.reg_iod) addRequiredElementsToDs() (in module cerr.dcm_export.reg_iod) addScan() (cerr.plan_container.PlanC method) addSequenceListsToDs() (in module cerr.dcm_export.reg_iod) addSeriesTags() (in module cerr.dcm_export.iod_helper) addSOPCommonTags() (in module cerr.dcm_export.iod_helper) addStructureSetTags() (in module cerr.dcm_export.iod_helper)

addStudyAndSeriesInformation() (in module cerr.dcm_export.reg_iod) addStudyTags() (in module cerr.dcm_export.iod_helper) addToH5Grp() (in module cerr.plan_container) after_load() (cerr.viewer.pycerr_gui.PyCerrViewer method) aggregateRotatedResponses() (in module cerr.radiomics.texture_filters) algorithm (cerr.dataclasses.deform.Deform attribute) (cerr.imrtp.imrtp_problem.IMParams attribute) algorithmParams (cerr.dataclasses.deform.Deform attribute) angleChanged (cerr.imrtp.imrtp_gui.GeometryPreview attribute) appeltLogit() (in module cerr.roe.dosimetric_models) applyIMRTCompression() (in module cerr.imrtp.dosecalc) (in module cerr.imrtp.dosecalc.qib) ApprovalStatus (cerr.dataclasses.beams.Beams attribute), [1] arcAngle (cerr.imrtp.imrtp_problem.IMBeam attribute) ascending() (in module cerr.viewer.pycerr_gui) asDict() (in module cerr.imrtp.imrtp_problem) assocBaseScanUID (cerr.dataclasses.scan.Scan attribute), [1] assocBeamUID (cerr.dataclasses.dose.Dose attribute), [1] assocDeformUID (cerr.dataclasses.scan.Scan attribute), [1] associatedScan (cerr.dataclasses.dose.Dose attribute) assocMovingScanUID (cerr.dataclasses.scan.Scan attribute), [1] assocScanNum() (cerr.imrtp.imrtp_problem.IMRTProblem method) assocScanUID (cerr.dataclasses.dose.Dose attribute), [1] (cerr.dataclasses.structure.Structure attribute), [1] (cerr.imrtp.imrtp_problem.IMRTProblem attribute) assocTextureUID (cerr.dataclasses.scan.Scan attribute), [1] autoCheckChanged() (cerr.imrtp.imrtp_gui.IMRTPGuiWindow method) availableEngines() (in module cerr.imrtp.imrtp)

B

base (cerr.imrtp.imrtp_problem.VMCParams attribute) baseScanUID (cerr.dataclasses.deform.Deform attribute) batch (cerr.imrtp.dosecalc.MCRecompParams attribute) (cerr.imrtp.dosecalc.montecarlo.MCRecompParams attribute) batchSelectStartOfUptake() (in module cerr.mri_metrics.dce_mri) beam2MCdose() (in module cerr.imrtp.dosecalc) (in module cerr.imrtp.dosecalc.montecarlo) BEAM_FIELD_EDITABLE (in module cerr.imrtp.imrtp_problem) BEAM_FIELD_NAMES (in module cerr.imrtp.imrtp_problem) BeamDescription (cerr.dataclasses.beams.BeamSeq attribute), [1] beamDescription (cerr.imrtp.imrtp_problem.IMBeam attribute) beamEnergy (cerr.imrtp.imrtp_problem.IMBeam attribute) beamFileName (cerr.dataclasses.beams.Beams attribute), [1] beamGeometry() (in module cerr.imrtp.imrtp_gui) Beamlet (class in cerr.imrtp.imrtp_problem) beamletDelta_x (cerr.imrtp.imrtp_problem.IMBeam attribute) beamletDelta_y (cerr.imrtp.imrtp_problem.IMBeam attribute) beamlets (cerr.imrtp.imrtp_problem.IMBeam attribute) beamletWeights (cerr.imrtp.imrtp_problem.IMSolution attribute) BeamLimitingDeviceAngle (cerr.dataclasses.beams.ControlPointSequence attribute), [1] BeamLimitingDevicePositionSeq (cerr.dataclasses.beams.BeamSeq attribute), [1] (class in cerr.dataclasses.beams) BeamLimitingDevicePositionSequence (cerr.dataclasses.beams.ControlPointSequence attribute) BeamLimitingDeviceRotationDirection (cerr.dataclasses.beams.ControlPointSequence attribute), [1] BeamMeterset (cerr.dataclasses.beams.RefBeamSeq attribute), [1] beamModality (cerr.imrtp.imrtp_problem.IMBeam attribute)

BeamName (cerr.dataclasses.beams.BeamSeq attribute), [1] beamNum (cerr.imrtp.imrtp_problem.Beamlet attribute) (cerr.imrtp.imrtp_problem.IMBeam attribute) BeamNumber (cerr.dataclasses.beams.BeamSeq attribute), [1] beamParamChanged() (cerr.imrtp.imrtp_gui.IMRTPGuiWindow method) beamPolylines() (in module cerr.imrtp.imrtp_gui) beams (cerr.imrtp.imrtp_problem.IMRTProblem attribute) (cerr.plan_container.PlanC attribute), [1] Beams (class in cerr.dataclasses.beams) BeamSeq (class in cerr.dataclasses.beams) BeamSeq.json_serialize (class in cerr.dataclasses.beams) BeamSequence (cerr.dataclasses.beams.Beams attribute), [1] beamsFromRTPlan() (in module cerr.imrtp.dosecalc) (in module cerr.imrtp.dosecalc.rtplan) BeamType (cerr.dataclasses.beams.BeamSeq attribute), [1] beamType (cerr.imrtp.imrtp_problem.IMBeam attribute) BeamUID (cerr.dataclasses.beams.Beams attribute), [1] beamUID (cerr.imrtp.imrtp_problem.IMBeam attribute) biexpFn() (in module cerr.roe.dosimetric_models) bitsAllocated (cerr.dataclasses.scan_info.ScanInfo attribute), [1] bitsStored (cerr.dataclasses.scan_info.ScanInfo attribute), [1] blurring() (in module cerr.utils.mask) BOT (cerr.viewer.pycerr_gui.DoseColorbarWidget attribute) browseIM() (cerr.imrtp.imrtp_gui.IMRTPGuiWindow method) brushDone (cerr.viewer.pycerr_gui.SliceView attribute) brushStroke (cerr.viewer.pycerr_gui.SliceView attribute) bValue (cerr.dataclasses.scan_info.ScanInfo attribute), [1]

C

cachedColor (cerr.dataclasses.dose.Dose attribute) cachedTime (cerr.dataclasses.dose.Dose attribute) calcCooccur() (in module cerr.radiomics.gray_level_cooccurence) calcDoseByBeamMeterset() (in module cerr.imrtp.dosecalc) (in module cerr.imrtp.dosecalc.montecarlo) calcIsocenter() (in module cerr.dataclasses.structure) calcJacobian() (in module cerr.registration.register) calcMaxDistBetweenPts() (in module cerr.radiomics.shape) calcNGLDM() (in module cerr.radiomics.neighbor_gray_level_dependence) calcNGTDM() (in module cerr.radiomics.neighbor_gray_tone) calcRadiomicsForImgType() (in module cerr.radiomics.ibsi1) calcRLM() (in module cerr.radiomics.run_length) calcRobustZscore() (in module cerr.radiomics.preprocess) calcROIuptakeFeatures() (in module cerr.mri_metrics.dce_mri) calcShapeFeatures() (in module cerr.radiomics.shape) calcSZM() (in module cerr.radiomics.size_zone) calcVectorField() (in module cerr.registration.register) cancel_polygon() (cerr.viewer.pycerr_gui.SliceView method) capture() (in module cerr.viewer.pycerr_gui) captureToFile() (in module cerr.viewer.pycerr_napari) caseNumber (cerr.dataclasses.dose.Dose attribute) (cerr.dataclasses.scan_info.ScanInfo attribute) center_cross_on_mouse() (in module cerr.multiViewHelper) cerr module cerr.contour module cerr.contour.contour_processing module cerr.contour.rasterseg module cerr.dataclasses module cerr.dataclasses.beams module cerr.dataclasses.deform module cerr.dataclasses.dose module cerr.dataclasses.header module cerr.dataclasses.imrt module cerr.dataclasses.scan module cerr.dataclasses.scan_info module cerr.dataclasses.structure module cerr.datasets module cerr.dcm_export module cerr.dcm_export.iod_helper module cerr.dcm_export.reg_iod module cerr.dcm_export.rtstruct_iod module cerr.dvh module cerr.imrtp module cerr.imrtp.dosecalc module cerr.imrtp.dosecalc.influence module cerr.imrtp.dosecalc.montecarlo module cerr.imrtp.dosecalc.qib module cerr.imrtp.dosecalc.qib_data module cerr.imrtp.dosecalc.raytrace module cerr.imrtp.dosecalc.recalc module cerr.imrtp.dosecalc.rtplan module cerr.imrtp.imrtp module cerr.imrtp.imrtp_gui module cerr.imrtp.imrtp_problem module cerr.mri_metrics module cerr.mri_metrics.dce_mri module cerr.multiViewHelper module cerr.plan_container module cerr.radiomics module cerr.radiomics.first_order module cerr.radiomics.gray_level_cooccurence module cerr.radiomics.ibsi1 module cerr.radiomics.neighbor_gray_level_dependence module cerr.radiomics.neighbor_gray_tone module cerr.radiomics.preprocess module cerr.radiomics.run_length module cerr.radiomics.shape module cerr.radiomics.size_zone module cerr.radiomics.texture_filters module cerr.radiomics.texture_utils module

cerr.registration module cerr.registration.register module cerr.roe module cerr.roe.dosimetric_models module cerr.utils module cerr.utils.ai_pipeline module cerr.utils.custom_colormaps module cerr.utils.image_proc module cerr.utils.interp module cerr.utils.mask module cerr.utils.statistics module cerr.utils.uid module cerr.viewer module cerr.viewer.cerr_colormaps module cerr.viewer.pycerr_gui module cerr.viewer.pycerr_napari module cerr.viewer.pycerr_nbviewer module cerr_get_cmap() (in module cerr.viewer.pycerr_gui) (in module cerr.viewer.pycerr_nbviewer) cerr_get_lut() (in module cerr.viewer.pycerr_gui) cerrDcmSliceDirMatch (cerr.dataclasses.dose.Dose attribute), [1] cerrToDcmTransM (cerr.dataclasses.deform.Deform attribute) (cerr.dataclasses.dose.Dose attribute) (cerr.dataclasses.scan.Scan attribute), [1] checkerboard_indices() (in module cerr.viewer.pycerr_napari) clear_draw_artists() (cerr.viewer.pycerr_gui.SliceView method) clear_ruler() (cerr.viewer.pycerr_gui.SliceView method) clearBeamlets() (cerr.imrtp.imrtp_problem.IMRTProblem method) CLICK_PX (cerr.viewer.pycerr_gui.SliceView attribute) closeEvent() (cerr.imrtp.imrtp_gui.IMRTPGuiWindow method) (cerr.viewer.pycerr_gui.ContourDialog method) (cerr.viewer.pycerr_gui.PyCerrViewer method) (cerr.viewer.pycerr_gui.RegQaDialog method) closeMask() (in module cerr.utils.mask) collectUserInput() (in module cerr.mri_metrics.dce_mri) collimatorAngle (cerr.imrtp.imrtp_problem.IMBeam attribute) compare_maps() (in module tests.test_ibsi2_filters) compose_slice() (cerr.viewer.pycerr_gui.RegQaDialog method) compute_dvh() (cerr.viewer.pycerr_gui.PyCerrViewer method) (cerr.viewer.pycerr_nbviewer.NbViewer method) computeBoundingBox() (in module cerr.utils.mask) computeFeatureImportance() (in module cerr.radiomics.ibsi1) computeScalarFeatures() (in module cerr.radiomics.ibsi1) conditionBeam() (in module cerr.imrtp.imrtp_problem) configure() (cerr.viewer.pycerr_gui.RegQaDialog method) contextMenuEvent() (cerr.viewer.pycerr_gui.DoseColorbarWidget method) contextRequested (cerr.viewer.pycerr_gui.SliceView attribute) contour (cerr.dataclasses.structure.Structure attribute), [1] Contour (class in cerr.dataclasses.structure) ContourDialog (class in cerr.viewer.pycerr_gui) ContrastBolusAgent (cerr.dataclasses.scan_info.ScanInfo attribute) contrastBolusAgent (cerr.dataclasses.scan_info.ScanInfo attribute) ControlPointIndex (cerr.dataclasses.beams.ControlPointSequence attribute), [1] ControlPointSequence (cerr.dataclasses.beams.BeamSeq attribute), [1] (class in cerr.dataclasses.beams) convertCerrToDcmCoords() (in module cerr.dcm_export.rtstruct_iod) convertDcmToCerrVirtualCoords() (cerr.dataclasses.deform.Deform method) (cerr.dataclasses.dose.Dose method) (cerr.dataclasses.scan.Scan method) (cerr.dataclasses.structure.Structure method) convertDcmToRealWorldUnits() (cerr.dataclasses.scan.Scan method) convertToSUV() (cerr.dataclasses.scan.Scan method) cooccurToScalarFeatures() (in module cerr.radiomics.gray_level_cooccurence) coord1OFFirstPoint (cerr.dataclasses.dose.Dose attribute), [1] coord2OFFirstPoint (cerr.dataclasses.dose.Dose attribute), [1] coord3OfFirstPoint (cerr.dataclasses.dose.Dose attribute), [1] copy_adjacent() (cerr.viewer.pycerr_gui.ContourDialog method) copy_layer() (in module cerr.multiViewHelper) copy_layer_le_4_16() (in module cerr.multiViewHelper) copyToScan() (in module cerr.dataclasses.structure) correctedImage (cerr.dataclasses.scan_info.ScanInfo attribute) couchAngle (cerr.imrtp.imrtp_problem.IMBeam attribute) coxFn() (in module cerr.roe.dosimetric_models) create() (in module cerr.dcm_export.reg_iod) (in module cerr.dcm_export.rtstruct_iod) createDefaultBeam() (in module cerr.imrtp.imrtp_problem) createDeformSeq() (in module cerr.dcm_export.reg_iod) createDVF() (in module cerr.dcm_export.reg_iod) createFeatureMaps() (in module cerr.mri_metrics.dce_mri) createFieldNameFromParameters() (in module cerr.radiomics.ibsi1) createFlatFeatureDict() (in module cerr.radiomics.ibsi1) createREGDataset() (in module cerr.dcm_export.reg_iod) createSessionDir() (in module cerr.utils.ai_pipeline) createSitkImage() (in module cerr.dataclasses.structure) createStructuringElement() (in module cerr.utils.mask) createUID() (in module cerr.utils.uid) crosshairDragged (cerr.viewer.pycerr_gui.SliceView attribute) CrossWidget (class in cerr.multiViewHelper) CTAir (cerr.dataclasses.scan_info.ScanInfo attribute) CTOffset (cerr.dataclasses.scan_info.ScanInfo attribute), [1] CTScale (cerr.dataclasses.scan_info.ScanInfo attribute) CTTrace (class in cerr.imrtp.dosecalc) (class in cerr.imrtp.dosecalc.raytrace) CTWater (cerr.dataclasses.scan_info.ScanInfo attribute) cumDensityRay (cerr.imrtp.dosecalc.CTTrace attribute) (cerr.imrtp.dosecalc.raytrace.CTTrace attribute) CumulativeMetersetWeight (cerr.dataclasses.beams.ControlPointSequence attribute), [1] cursorMoved (cerr.viewer.pycerr_gui.SliceView attribute) cutoffDistance (cerr.imrtp.imrtp_problem.IMParams attribute)

D

dateCreated (cerr.dataclasses.header.Header attribute) dateLastSaved (cerr.dataclasses.header.Header attribute) dateOfCreation (cerr.imrtp.imrtp_problem.IMBeam attribute) dateWritten (cerr.dataclasses.dose.Dose attribute), [1] (cerr.dataclasses.structure.Structure attribute), [1] dcm_hhmmss() (in module cerr.dataclasses.scan) dcm_to_np_date() (in module cerr.dataclasses.scan) dcmIsocenterToCerr() (in module cerr.imrtp.dosecalc) (in module cerr.imrtp.dosecalc.rtplan) decayCorrection (cerr.dataclasses.scan_info.ScanInfo attribute) decomposeLOC() (in module cerr.radiomics.texture_filters) deduce_voxel_thickness() (in module cerr.dataclasses.scan_info) default() (cerr.dataclasses.beams.BeamSeq.json_serialize method) (cerr.dataclasses.dose.Dose.json_serialize method) (cerr.dataclasses.scan.Scan.json_serialize method) (cerr.dataclasses.structure.jsonSerializeContour method) (cerr.dataclasses.structure.jsonSerializeSegment method) (cerr.dataclasses.structure.jsonSerializeStruct method) (cerr.plan_container.PlanC.json_serialize method) deform (cerr.plan_container.PlanC attribute), [1] Deform (class in cerr.dataclasses.deform) deformOutFilePath (cerr.dataclasses.deform.Deform attribute) deformOutFileType (cerr.dataclasses.deform.Deform attribute) deformParams (cerr.dataclasses.deform.Deform attribute) deformUID (cerr.dataclasses.deform.Deform attribute) deIdentificationMethod (cerr.dataclasses.beams.Beams attribute), [1] (cerr.dataclasses.dose.Dose attribute), [1] (cerr.dataclasses.scan_info.ScanInfo attribute), [1] (cerr.dataclasses.structure.Structure attribute), [1] deidentificationMethodDescription (cerr.dataclasses.beams.Beams attribute), [1] (cerr.dataclasses.dose.Dose attribute), [1] (cerr.dataclasses.scan_info.ScanInfo attribute), [1] (cerr.dataclasses.structure.Structure attribute), [1] delBeam() (cerr.imrtp.imrtp_gui.IMRTPGuiWindow method) delete_slice() (cerr.viewer.pycerr_gui.ContourDialog method) deleteIM() (cerr.imrtp.imrtp_gui.IMRTPGuiWindow method) delGoal() (cerr.imrtp.imrtp_gui.IMRTPGuiWindow method) delivered (cerr.dataclasses.dose.Dose attribute), [1] DeliveryMaximumDose (cerr.dataclasses.beams.DoseReferenceSeq attribute), [1] deltaQBM (cerr.imrtp.dosecalc.qib_data.QIBDataS attribute) (cerr.imrtp.dosecalc.QIBDataS attribute) densityRay (cerr.imrtp.dosecalc.CTTrace attribute) (cerr.imrtp.dosecalc.raytrace.CTTrace attribute) depthGridInterval (cerr.dataclasses.dose.Dose attribute) dimension (cerr.imrtp.imrtp_problem.VMCParams attribute) disp_diff() (in module tests.test_ibsi1_features) (in module tests.test_ibsi2_features)

display_dose() (cerr.viewer.pycerr_gui.PyCerrViewer method) distrustAbove (cerr.dataclasses.scan_info.ScanInfo attribute) distSamplePts (cerr.imrtp.dosecalc.CTTrace attribute) (cerr.imrtp.dosecalc.raytrace.CTTrace attribute) dose (cerr.plan_container.PlanC attribute), [1] Dose (class in cerr.dataclasses.dose) Dose.json_serialize (class in cerr.dataclasses.dose) doseArray (cerr.dataclasses.dose.Dose attribute), [1] (cerr.imrtp.imrtp_problem.IMSolution attribute) doseAtNormaliznPoint (cerr.dataclasses.dose.Dose attribute), [1] DoseColorbarWidget (class in cerr.viewer.pycerr_gui) doseDescription (cerr.dataclasses.dose.Dose attribute) doseEdition (cerr.dataclasses.dose.Dose attribute) doseError (cerr.dataclasses.dose.Dose attribute) doseFileName (cerr.dataclasses.dose.Dose attribute), [1] doseHist() (in module cerr.dvh) doseNumber (cerr.dataclasses.dose.Dose attribute) doseOffset (cerr.dataclasses.dose.Dose attribute), [1] DoseReferenceSeq (class in cerr.dataclasses.beams) DoseReferenceSequence (cerr.dataclasses.beams.Beams attribute) DoseReferenceType (cerr.dataclasses.beams.DoseReferenceSeq attribute) DoseReferenceUID (cerr.dataclasses.beams.DoseReferenceSeq attribute), [1] doseScale (cerr.dataclasses.dose.Dose attribute), [1] (cerr.imrtp.imrtp_problem.IMSolution attribute) doseSummationType (cerr.dataclasses.dose.Dose attribute), [1] DoseTerm (cerr.imrtp.imrtp_problem.IMParams attribute) doseToPlanC() (in module cerr.imrtp.imrtp) doseToWater (cerr.imrtp.dosecalc.MCRecompParams attribute) (cerr.imrtp.dosecalc.montecarlo.MCRecompParams attribute) doseType (cerr.dataclasses.dose.Dose attribute), [1] doseUID (cerr.dataclasses.dose.Dose attribute), [1] doseUnits (cerr.dataclasses.dose.Dose attribute), [1] dpmEngine() (in module cerr.imrtp.dosecalc.montecarlo) dragEnterEvent() (cerr.viewer.pycerr_gui.PyCerrViewer method) dragFinished (cerr.imrtp.imrtp_gui.GeometryPreview attribute) dragMoveEvent() (cerr.viewer.pycerr_gui.PyCerrViewer method) draw_guides() (cerr.viewer.pycerr_gui.RegQaDialog method) dropEvent() (cerr.viewer.pycerr_gui.PyCerrViewer method) DSHPoints (cerr.dataclasses.structure.Structure attribute) dt (cerr.dataclasses.header.Header attribute) dvfMatrix (cerr.dataclasses.deform.Deform attribute) DvhDialog (class in cerr.viewer.pycerr_gui) dx (cerr.dataclasses.deform.Deform attribute) Dx() (in module cerr.dvh) dy (cerr.dataclasses.deform.Deform attribute) dyadUp() (in module cerr.radiomics.preprocess)

E

eig() (in module cerr.radiomics.shape) energyFilter() (in module cerr.radiomics.texture_filters) eud() (in module cerr.dvh)

ExampleWidget (class in cerr.multiViewHelper) export_dvh() (cerr.viewer.pycerr_gui.PyCerrViewer method) (cerr.viewer.pycerr_nbviewer.NbViewer method) extract_patches_3d_slice_wise() (in module cerr.radiomics.preprocess)

F

fillHoles() (in module cerr.utils.mask) fillWater (cerr.imrtp.dosecalc.MCRecompParams attribute) (cerr.imrtp.dosecalc.montecarlo.MCRecompParams attribute) finterp2() (in module cerr.utils.interp) finterp3() (in module cerr.utils.interp) firstZValue (cerr.dataclasses.scan_info.UniformScanInfo attribute) flipSequenceForWavelets() (in module cerr.radiomics.texture_filters) flipSliceOrderFlag() (in module cerr.dataclasses.deform) (in module cerr.dataclasses.scan) format (cerr.imrtp.imrtp_problem.Beamlet attribute) fracIndex() (cerr.imrtp.dosecalc.raytrace.ScanGrid method) (cerr.imrtp.dosecalc.ScanGrid method)

fractionGroupID (cerr.dataclasses.dose.Dose attribute), [1] FractionGroupNumber (cerr.dataclasses.beams.FractionGroupSeq attribute) FractionGroupSeq (class in cerr.dataclasses.beams) FractionGroupSequence (cerr.dataclasses.beams.Beams attribute), [1] fractionNumCorrect() (in module cerr.dataclasses.dose) fractionSizeCorrect() (in module cerr.dataclasses.dose) frameAcquisitionDuration (cerr.dataclasses.scan_info.ScanInfo attribute), [1] frameOfReferenceUID (cerr.dataclasses.dose.Dose attribute), [1] (cerr.dataclasses.scan_info.ScanInfo attribute), [1] frameReferenceDateTime (cerr.dataclasses.scan_info.ScanInfo attribute), [1] fullLength (cerr.imrtp.imrtp_problem.Beamlet attribute)

G

gaborFilter() (in module cerr.radiomics.texture_filters) gaborFilter3d() (in module cerr.radiomics.texture_filters) gantry2RTOGVectors() (in module cerr.imrtp.dosecalc) (in module cerr.imrtp.dosecalc.qib) GantryAngle (cerr.dataclasses.beams.ControlPointSequence attribute), [1] gantryAngle (cerr.imrtp.imrtp_problem.IMBeam attribute) GantryRotationDirection (cerr.dataclasses.beams.ControlPointSequence attribute), [1] generateBaseDataset() (in module cerr.dcm_export.reg_iod) generateQIBInfluence() (in module cerr.imrtp.dosecalc) (in module cerr.imrtp.dosecalc.influence) generateRastersegs() (in module cerr.contour.rasterseg) generateTextureMapFromPlanC() (in module cerr.radiomics.texture_utils) GeometryPreview (class in cerr.imrtp.imrtp_gui) gePETDecayCorrectionDateTime (cerr.dataclasses.scan_info.ScanInfo attribute), [1] get3dLawsMask() (in module cerr.radiomics.texture_filters) get_cmap() (in module cerr.viewer.cerr_colormaps) get_corrected_dvbins() (in module cerr.roe.dosimetric_models) get_empty_list() (in module cerr.dataclasses.beams) (in module cerr.dataclasses.deform) (in module cerr.dataclasses.dose) (in module cerr.dataclasses.imrt) (in module cerr.dataclasses.scan) (in module cerr.dataclasses.scan_info) (in module cerr.dataclasses.structure) (in module cerr.plan_container) get_empty_np_array() (in module cerr.dataclasses.beams) (in module cerr.dataclasses.deform) (in module cerr.dataclasses.dose) (in module cerr.dataclasses.imrt) (in module cerr.dataclasses.scan) (in module cerr.dataclasses.scan_info) (in module cerr.dataclasses.structure) get_lut() (in module cerr.viewer.cerr_colormaps) get_property_names() (in module cerr.multiViewHelper) get_ref_feature_vals() (in module tests.test_ibsi1_features) (in module tests.test_ibsi2_features) get_scan_layers() (in module cerr.viewer.pycerr_napari) get_slice_directions() (in module cerr.dcm_export.reg_iod) get_slice_position() (in module cerr.dataclasses.scan) getAssocFilteredScanNum() (in module cerr.utils.ai_pipeline) getAssociatedBeamNum() (cerr.dataclasses.dose.Dose method) getAssocResampledScanNum() (in module cerr.utils.ai_pipeline) getAssocWarpedScanNum() (in module cerr.utils.ai_pipeline) getBsplineSmoothing() (in module cerr.dataclasses.structure) getCERRScanArrayFromITK() (in module cerr.dataclasses.scan) getClosedMask() (in module cerr.dataclasses.structure) getColorForStructNum() (in module cerr.dataclasses.structure) getContourPolygons() (cerr.dataclasses.structure.Structure method) getCouchLocationHough() (in module cerr.utils.mask) getDcmScanInfo() (cerr.dataclasses.scan.Scan method) getDcmTagVals() (in module cerr.dcm_export.reg_iod) (in module cerr.dcm_export.rtstruct_iod) getDeformDict() (cerr.dataclasses.deform.Deform method) getDirectionOffsets() (in module cerr.radiomics.ibsi1) getDoseAt() (cerr.dataclasses.dose.Dose method) getDoseDict() (cerr.dataclasses.dose.Dose method) getDoseNumFromUID() (in module cerr.dataclasses.dose) getDoseXYZVals() (cerr.dataclasses.dose.Dose method) getDown2Mask() (in module cerr.utils.mask) getDown3Mask() (in module cerr.utils.mask) getDVFGridSeq() (in module cerr.dcm_export.reg_iod) getDVFMetadata() (in module cerr.dcm_export.reg_iod) getDvfVectors() (in module cerr.registration.register) getDVFXYZVals() (cerr.dataclasses.deform.Deform method) getDVH() (in module cerr.dvh) getFileMeta() (in module cerr.dcm_export.iod_helper) (in module cerr.dcm_export.reg_iod) getFrxSize() (in module cerr.dataclasses.dose) getGaussianBlurredMask() (in module cerr.dataclasses.structure) getIBSINameMap() (in module cerr.radiomics.ibsi1) getImage2PhysicalTransM() (cerr.dataclasses.dose.Dose method) getIMDose() (in module cerr.imrtp.dosecalc) (in module cerr.imrtp.dosecalc.influence) getImgDirMetadata() (in module cerr.dcm_export.reg_iod)

getIMList() (in module cerr.imrtp.imrtp_problem) getITKDirection() (in module cerr.dataclasses.scan) getJsonList() (in module cerr.dataclasses.structure) getLabelMap() (in module cerr.dataclasses.structure) getLabelsDict() (in module cerr.viewer.pycerr_napari) getLabelsList() (in module cerr.viewer.pycerr_napari) getLargestConnComps() (in module cerr.dataclasses.structure) getLawsMasks() (in module cerr.radiomics.texture_filters) getMaskList() (in module cerr.dataclasses.structure) getMatchFields() (in module cerr.radiomics.texture_filters) getMatchingIndex() (in module cerr.dataclasses.structure) getMatrixSeq() (in module cerr.dcm_export.reg_iod) getNiiAffine() (cerr.dataclasses.dose.Dose method) (cerr.dataclasses.scan.Scan method) getNumFrx() (in module cerr.dataclasses.dose) getPatientOutline() (in module cerr.utils.mask) getPBConsts() (in module cerr.imrtp.dosecalc) (in module cerr.imrtp.dosecalc.qib) getPBRayData() (in module cerr.imrtp.dosecalc) (in module cerr.imrtp.dosecalc.raytrace) getPBRays() (in module cerr.imrtp.dosecalc) (in module cerr.imrtp.dosecalc.raytrace) getPerIndices() (in module cerr.radiomics.preprocess) getPlanC() (cerr.viewer.pycerr_gui.PyCerrViewer method) (cerr.viewer.pycerr_nbviewer.NbViewer method) getPrescriptionDose() (in module cerr.dataclasses.dose) getQIBDose() (in module cerr.imrtp.dosecalc) (in module cerr.imrtp.dosecalc.qib) getQuantizedVolume() (in module cerr.radiomics.ibsi1) getRadiomicsSettings() (in module cerr.radiomics.ibsi1) getRCSwithinScanExtents() (in module cerr.viewer.pycerr_napari) getRefFORSeq() (in module cerr.dcm_export.rtstruct_iod) getRefImgSeq() (in module cerr.dcm_export.reg_iod) getREGTypeCodeSeq() (in module cerr.dcm_export.reg_iod) getResampledGrid() (in module cerr.radiomics.preprocess) getROIContourSeq() (in module cerr.dcm_export.rtstruct_iod) getROIObservSeq() (in module cerr.dcm_export.rtstruct_iod) getScanArray() (cerr.dataclasses.scan.Scan method) getScanDict() (cerr.dataclasses.scan.Scan method) getScanNumFromIdentifier() (in module cerr.utils.ai_pipeline) getScanNumFromUID() (in module cerr.dataclasses.scan) getScanOrientation() (cerr.dataclasses.scan.Scan method) getScanSize() (cerr.dataclasses.scan.Scan method) getScanSpacing() (cerr.dataclasses.scan.Scan method) getScanXYZVals() (cerr.dataclasses.scan.Scan method) getSitkImage() (cerr.dataclasses.dose.Dose method) (cerr.dataclasses.scan.Scan method) (cerr.dataclasses.structure.Structure method) getSlicePosition() (in module cerr.dcm_export.reg_iod) getSortedItems() (in module cerr.plan_container) getStartofUptake() (in module cerr.mri_metrics.dce_mri) getStrMask() (in module cerr.contour.rasterseg) getStructDict() (cerr.dataclasses.structure.Structure method) getStructNumFromSOPInstanceUID() (in module cerr.dataclasses.structure) getStructNumFromUID() (in module cerr.dataclasses.structure) getStructSetROISeq() (in module cerr.dcm_export.rtstruct_iod) getStructureAssociatedScan() (cerr.dataclasses.structure.Structure method) getSurfaceExpand() (in module cerr.dataclasses.structure) getSurfacePoints() (in module cerr.utils.mask) getTargetSurfacePoints() (in module cerr.imrtp.dosecalc) (in module cerr.imrtp.dosecalc.raytrace) getTreatmentSchedule() (in module cerr.roe.dosimetric_models) getUniformScanSize() (cerr.dataclasses.scan.Scan method) getWaveletSubbands() (in module cerr.radiomics.texture_filters) GOAL_FIELDS (in module cerr.imrtp.imrtp_problem) goals (cerr.imrtp.imrtp_problem.IMRTProblem attribute) goto_struct_center() (cerr.viewer.pycerr_gui.PyCerrViewer method) goto_structure() (cerr.viewer.pycerr_gui.PyCerrViewer method) (cerr.viewer.pycerr_nbviewer.NbViewer method) GRAB_PX (cerr.viewer.pycerr_gui.DoseColorbarWidget attribute) gradsense (cerr.imrtp.dosecalc.MCRecompParams attribute) (cerr.imrtp.dosecalc.montecarlo.MCRecompParams attribute) grid1Units (cerr.dataclasses.scan_info.ScanInfo attribute), [1] grid2Units (cerr.dataclasses.scan_info.ScanInfo attribute), [1]

H

halfLife (cerr.dataclasses.scan_info.ScanInfo attribute), [1] header (cerr.plan_container.PlanC attribute), [1]

Header (class in cerr.dataclasses.header) headInOut (cerr.dataclasses.scan_info.ScanInfo attribute) horizontalGridInterval (cerr.dataclasses.dose.Dose attribute), [1]

I

IM (class in cerr.dataclasses.imrt) Image2PhysicalTransM (cerr.dataclasses.deform.Deform attribute) (cerr.dataclasses.dose.Dose attribute), [1] (cerr.dataclasses.scan.Scan attribute), [1] Image2VirtualPhysicalTransM (cerr.dataclasses.deform.Deform attribute) (cerr.dataclasses.scan.Scan attribute), [1] imageNumber (cerr.dataclasses.scan_info.ScanInfo attribute) imageOrientationPatient (cerr.dataclasses.deform.Deform attribute) (cerr.dataclasses.dose.Dose attribute), [1] (cerr.dataclasses.scan_info.ScanInfo attribute), [1] imagePositionPatient (cerr.dataclasses.dose.Dose attribute), [1] (cerr.dataclasses.scan_info.ScanInfo attribute), [1] imagePositionPatientV (cerr.dataclasses.deform.Deform attribute) ImagePresentationGroupLength (cerr.dataclasses.beams.Beams attribute) imageSource (cerr.dataclasses.scan_info.ScanInfo attribute) imageType (cerr.dataclasses.scan_info.ScanInfo attribute), [1] imageUnits (cerr.dataclasses.scan_info.ScanInfo attribute), [1] IMBeam (class in cerr.imrtp.imrtp_problem) IMDosimetry (cerr.dataclasses.imrt.IM attribute) imFromRTPlan() (in module cerr.imrtp.dosecalc) (in module cerr.imrtp.dosecalc.rtplan) IMGoal (class in cerr.imrtp.imrtp_problem) imgResample3D() (in module cerr.radiomics.preprocess) imParamChanged() (cerr.imrtp.imrtp_gui.IMRTPGuiWindow method) IMParams (class in cerr.imrtp.imrtp_problem) import_dicom() (cerr.viewer.pycerr_gui.PyCerrViewer method) import_nii_dose() (cerr.viewer.pycerr_gui.PyCerrViewer method) import_nii_scan() (cerr.viewer.pycerr_gui.PyCerrViewer method) import_nii_struct() (cerr.viewer.pycerr_gui.PyCerrViewer method) importDoseArray() (in module cerr.plan_container) importJson() (in module cerr.dataclasses.structure) importNii() (in module cerr.dataclasses.dose) (in module cerr.dataclasses.structure) importScanArray() (in module cerr.plan_container) importStructureMask() (in module cerr.dataclasses.structure) (in module cerr.plan_container) imquantize() (in module cerr.radiomics.preprocess)

IMRTPGui() (in module cerr.imrtp) (in module cerr.imrtp.imrtp_gui) IMRTPGuiWindow (class in cerr.imrtp.imrtp_gui) IMRTProblem (class in cerr.imrtp.imrtp_problem) IMSetup (cerr.dataclasses.imrt.IM attribute) IMSolution (class in cerr.imrtp.imrtp_problem) IMUID (cerr.dataclasses.imrt.IM attribute) (cerr.imrtp.imrtp_problem.IMRTProblem attribute) includeError (cerr.imrtp.imrtp_problem.VMCParams attribute) indexV (cerr.imrtp.imrtp_problem.Beamlet attribute) influence (cerr.imrtp.imrtp_problem.Beamlet attribute) initialize_dose_colorbar_widget() (in module cerr.viewer.pycerr_napari) initialize_dose_select_widget() (in module cerr.viewer.pycerr_napari) initialize_dvf_colorbar_widget() (in module cerr.viewer.pycerr_napari) initialize_image_window_widget() (in module cerr.viewer.pycerr_napari) initialize_reg_qa_widget() (in module cerr.viewer.pycerr_napari) initialize_struct_create_widget() (in module cerr.viewer.pycerr_napari) initialize_struct_edit_widget() (in module cerr.viewer.pycerr_napari) initialize_struct_export_widget() (in module cerr.viewer.pycerr_napari) initIMRTProblem() (in module cerr.imrtp.imrtp_problem) injectedDose (cerr.dataclasses.scan_info.ScanInfo attribute), [1] injectionDate (cerr.dataclasses.scan_info.ScanInfo attribute), [1] injectionTime (cerr.dataclasses.scan_info.ScanInfo attribute), [1] inputIM (cerr.imrtp.dosecalc.MCRecompParams attribute) (cerr.imrtp.dosecalc.montecarlo.MCRecompParams attribute) inputPB (cerr.imrtp.dosecalc.MCRecompParams attribute) (cerr.imrtp.dosecalc.montecarlo.MCRecompParams attribute) interactiveMode (cerr.imrtp.dosecalc.MCRecompParams attribute) (cerr.imrtp.dosecalc.montecarlo.MCRecompParams attribute) intToConc() (in module cerr.mri_metrics.dce_mri) is3d (cerr.viewer.pycerr_gui.SliceView property) is_target() (cerr.imrtp.imrtp_problem.IMGoal method) isFresh (cerr.imrtp.imrtp_problem.IMRTProblem attribute) isocenter (cerr.imrtp.imrtp_problem.IMBeam attribute) Isocenter (class in cerr.imrtp.imrtp_problem) IsocenterPosition (cerr.dataclasses.beams.ControlPointSequence attribute), [1] isodistance (cerr.imrtp.imrtp_problem.IMBeam attribute) isTarget (cerr.imrtp.imrtp_problem.IMGoal attribute)

J

jsonSerializeContour (class in cerr.dataclasses.structure)

jsonSerializeSegment (class in cerr.dataclasses.structure) jsonSerializeStruct (class in cerr.dataclasses.structure)

K

K (cerr.imrtp.dosecalc.MCRecompParams attribute) (cerr.imrtp.dosecalc.montecarlo.MCRecompParams attribute) k1 (cerr.imrtp.dosecalc.qib_data.QIBDataS attribute) (cerr.imrtp.dosecalc.QIBDataS attribute) k2 (cerr.imrtp.dosecalc.qib_data.QIBDataS attribute) (cerr.imrtp.dosecalc.QIBDataS attribute)

k3 (cerr.imrtp.dosecalc.qib_data.QIBDataS attribute) (cerr.imrtp.dosecalc.QIBDataS attribute) k4 (cerr.imrtp.dosecalc.qib_data.QIBDataS attribute) (cerr.imrtp.dosecalc.QIBDataS attribute)

L

largestConnComps() (in module cerr.utils.mask) launch() (in module cerr.viewer.pycerr_gui) lawsEnergyFilter() (in module cerr.radiomics.texture_filters) lawsFilter() (in module cerr.radiomics.texture_filters) LeafJawPositions (cerr.dataclasses.beams.BeamLimitingDevicePositionSeq attribute), [1] leak (cerr.imrtp.dosecalc.MCRecompParams attribute) (cerr.imrtp.dosecalc.montecarlo.MCRecompParams attribute) linearFn() (in module cerr.roe.dosimetric_models) list_tests() (in module tests.test_ibsi2_filters) LKBFn() (in module cerr.roe.dosimetric_models) load_beams() (in module cerr.dataclasses.beams) load_data() (in module tests.test_ibsi1_features) (in module tests.test_ibsi2_features) (in module tests.test_ibsi2_filters) load_path() (cerr.viewer.pycerr_gui.PyCerrViewer method) loadDcmDir() (in module cerr.plan_container) loadDose() (in module cerr.dataclasses.dose) loadFromH5() (in module cerr.plan_container) loadH5Deform() (in module cerr.plan_container) loadH5Dose() (in module cerr.plan_container) loadH5Header() (in module cerr.plan_container) loadH5Scan() (in module cerr.plan_container)

loadH5Strucutre() (in module cerr.plan_container) loadMatrixFile() (in module cerr.dcm_export.reg_iod) loadNiiDose() (in module cerr.plan_container) loadNiiScan() (in module cerr.plan_container) loadNiiStructure() (in module cerr.plan_container) loadNiiVf() (in module cerr.plan_container) loadPBData() (in module cerr.imrtp.dosecalc) (in module cerr.imrtp.dosecalc.qib_data) loadPlanCFromPkl() (in module cerr.plan_container) loadScanFromDB() (in module cerr.plan_container) loadSettingsFromFile() (in module cerr.radiomics.texture_utils) loadSortedScanInfo() (in module cerr.dataclasses.scan) loadSortedSeriesData() (in module cerr.dcm_export.reg_iod) loadStructure() (in module cerr.dataclasses.structure) loadTimeSeq() (in module cerr.mri_metrics.dce_mri) locatePeak() (in module cerr.mri_metrics.dce_mri) LoGFilter() (in module cerr.radiomics.texture_filters) logitFn() (in module cerr.roe.dosimetric_models) lowDosePoints (cerr.imrtp.imrtp_problem.Beamlet attribute) LS_flag (cerr.imrtp.dosecalc.MCRecompParams attribute) (cerr.imrtp.dosecalc.montecarlo.MCRecompParams attribute) lungBED() (in module cerr.roe.dosimetric_models) lungTCP() (in module cerr.roe.dosimetric_models)

M

main() (in module cerr.viewer.pycerr_gui) Manufacturer (cerr.dataclasses.beams.Beams attribute), [1] manufacturer (cerr.dataclasses.beams.Beams attribute), [1] Manufacturer (cerr.dataclasses.beams.BeamSeq attribute) manufacturer (cerr.dataclasses.dose.Dose attribute), [1] (cerr.dataclasses.scan_info.ScanInfo attribute), [1] ManufacturerModelName (cerr.dataclasses.beams.Beams attribute), [1] manufacturerModelName (cerr.dataclasses.beams.Beams attribute), [1] (cerr.dataclasses.dose.Dose attribute), [1] (cerr.dataclasses.structure.Structure attribute), [1] markStale() (cerr.imrtp.imrtp_gui.IMRTPGuiWindow method) mask2scan() (in module cerr.contour.rasterseg) maxCTValue (cerr.dataclasses.scan_info.UniformScanInfo attribute) maxDose() (in module cerr.dvh) maximumNumberScans (cerr.dataclasses.structure.Structure attribute) maximumPointsPerSegment (cerr.dataclasses.structure.Structure attribute) maximumSegmentsPerScan (cerr.dataclasses.structure.Structure attribute) maxInfluenceVal (cerr.imrtp.imrtp_problem.Beamlet attribute) MC_PARAM_NAMES (in module cerr.imrtp.imrtp_problem) MC_SOLVER_DPM (in module cerr.imrtp.dosecalc.montecarlo) mcParamChanged() (cerr.imrtp.imrtp_gui.IMRTPGuiWindow method) MCRecompParams (class in cerr.imrtp.dosecalc) (class in cerr.imrtp.dosecalc.montecarlo) MCsolver (cerr.imrtp.dosecalc.MCRecompParams attribute) (cerr.imrtp.dosecalc.montecarlo.MCRecompParams attribute) meanDose() (in module cerr.dvh) meanFilter() (in module cerr.radiomics.texture_filters) medianDose() (in module cerr.dvh) minCTValue (cerr.dataclasses.scan_info.UniformScanInfo attribute) minDose() (in module cerr.dvh) mirror_scope_callback() (in module cerr.viewer.pycerr_napari) MLC (cerr.imrtp.dosecalc.MCRecompParams attribute) (cerr.imrtp.dosecalc.montecarlo.MCRecompParams attribute) MOCx() (in module cerr.dvh) mode() (cerr.viewer.pycerr_gui.RegQaDialog method) MODES (cerr.viewer.pycerr_gui.RegQaDialog attribute) module cerr cerr.contour cerr.contour.contour_processing cerr.contour.rasterseg cerr.dataclasses cerr.dataclasses.beams cerr.dataclasses.deform cerr.dataclasses.dose cerr.dataclasses.header cerr.dataclasses.imrt cerr.dataclasses.scan cerr.dataclasses.scan_info cerr.dataclasses.structure cerr.datasets cerr.dcm_export cerr.dcm_export.iod_helper cerr.dcm_export.reg_iod cerr.dcm_export.rtstruct_iod cerr.dvh cerr.imrtp cerr.imrtp.dosecalc cerr.imrtp.dosecalc.influence cerr.imrtp.dosecalc.montecarlo cerr.imrtp.dosecalc.qib cerr.imrtp.dosecalc.qib_data cerr.imrtp.dosecalc.raytrace cerr.imrtp.dosecalc.recalc cerr.imrtp.dosecalc.rtplan cerr.imrtp.imrtp cerr.imrtp.imrtp_gui cerr.imrtp.imrtp_problem cerr.mri_metrics cerr.mri_metrics.dce_mri cerr.multiViewHelper cerr.plan_container cerr.radiomics cerr.radiomics.first_order cerr.radiomics.gray_level_cooccurence cerr.radiomics.ibsi1 cerr.radiomics.neighbor_gray_level_dependence cerr.radiomics.neighbor_gray_tone cerr.radiomics.preprocess cerr.radiomics.run_length cerr.radiomics.shape cerr.radiomics.size_zone cerr.radiomics.texture_filters cerr.radiomics.texture_utils cerr.registration cerr.registration.register cerr.roe cerr.roe.dosimetric_models cerr.utils cerr.utils.ai_pipeline cerr.utils.custom_colormaps cerr.utils.image_proc cerr.utils.interp cerr.utils.mask cerr.utils.statistics cerr.utils.uid cerr.viewer cerr.viewer.cerr_colormaps cerr.viewer.pycerr_gui cerr.viewer.pycerr_napari cerr.viewer.pycerr_nbviewer tests tests.test_ibsi1_features tests.test_ibsi2_features tests.test_ibsi2_filters tests.test_nii_export_import

MOHx() (in module cerr.dvh) monoEnergy (cerr.imrtp.imrtp_problem.VMCParams attribute) morphologicalClosing() (in module cerr.utils.mask) mouseDoubleClickEvent() (cerr.viewer.pycerr_gui.DoseColorbarWidget method) mouseMoveEvent() (cerr.viewer.pycerr_gui.DoseColorbarWidget method) mousePressEvent() (cerr.viewer.pycerr_gui.DoseColorbarWidget method) mouseReleaseEvent() (cerr.viewer.pycerr_gui.DoseColorbarWidget method) movScanUID (cerr.dataclasses.deform.Deform attribute) mtoaapm() (in module cerr.contour.rasterseg) MultipleViewerWidget (class in cerr.multiViewHelper)

N

name (cerr.imrtp.imrtp_problem.IMRTProblem attribute) NbViewer (class in cerr.viewer.pycerr_nbviewer) NEW_ITEM (cerr.viewer.pycerr_gui.ContourDialog attribute) newBeam() (cerr.imrtp.imrtp_gui.IMRTPGuiWindow method) newEquispaced() (cerr.imrtp.imrtp_gui.IMRTPGuiWindow method) ngldmToScalarFeatures() (in module cerr.radiomics.neighbor_gray_level_dependence) ngtdmToScalarFeatures() (in module cerr.radiomics.neighbor_gray_tone) nhist (cerr.imrtp.dosecalc.MCRecompParams attribute) (cerr.imrtp.dosecalc.montecarlo.MCRecompParams attribute) NominalBeamEnergy (cerr.dataclasses.beams.ControlPointSequence attribute), [1] normalizeToBaseline() (in module cerr.mri_metrics.dce_mri) NumBatches (cerr.imrtp.imrtp_problem.VMCParams attribute) numberMultiFrameImages (cerr.dataclasses.dose.Dose attribute), [1] NumberOfBeams (cerr.dataclasses.beams.FractionGroupSeq attribute), [1] NumberOfBlocks (cerr.dataclasses.beams.BeamSeq attribute), [1]

NumberOfBoli (cerr.dataclasses.beams.BeamSeq attribute), [1] NumberOfBrachyApplicationSetups (cerr.dataclasses.beams.FractionGroupSeq attribute), [1] NumberOfCompensators (cerr.dataclasses.beams.BeamSeq attribute), [1] NumberOfControlPoints (cerr.dataclasses.beams.BeamSeq attribute), [1] numberOfDimensions (cerr.dataclasses.dose.Dose attribute) (cerr.dataclasses.scan_info.ScanInfo attribute), [1] NumberOfFractionsPlanned (cerr.dataclasses.beams.FractionGroupSeq attribute), [1] numberOfScans (cerr.dataclasses.structure.Structure attribute), [1] numberOfTx (cerr.dataclasses.dose.Dose attribute) NumberOfWedges (cerr.dataclasses.beams.BeamSeq attribute), [1] numberRepresentation (cerr.dataclasses.dose.Dose attribute) (cerr.dataclasses.scan_info.ScanInfo attribute) numCachedSlices (cerr.dataclasses.dose.Dose attribute) numCTSamplePts (cerr.imrtp.imrtp_problem.IMParams attribute) NumParticles (cerr.imrtp.imrtp_problem.VMCParams attribute)

O

on_alpha() (cerr.viewer.pycerr_gui.PyCerrViewer method) on_crosshair_dragged() (cerr.viewer.pycerr_gui.PyCerrViewer method) on_crosshair_toggled() (cerr.viewer.pycerr_gui.PyCerrViewer method) on_cursor_moved() (cerr.viewer.pycerr_gui.PyCerrViewer method) on_dose_changed() (cerr.viewer.pycerr_gui.PyCerrViewer method) on_lock_toggled() (cerr.viewer.pycerr_gui.PyCerrViewer method) on_manual_wl() (cerr.viewer.pycerr_gui.PyCerrViewer method) on_orientation_toggled() (cerr.viewer.pycerr_gui.PyCerrViewer method) on_preset() (cerr.viewer.pycerr_gui.PyCerrViewer method) on_ruler_changed() (cerr.viewer.pycerr_gui.PyCerrViewer method) on_scan_alpha() (cerr.viewer.pycerr_gui.PyCerrViewer method)

on_scan_changed() (cerr.viewer.pycerr_gui.PyCerrViewer method) on_scan_cmap() (cerr.viewer.pycerr_gui.PyCerrViewer method) on_slice_changed() (cerr.viewer.pycerr_gui.PyCerrViewer method) on_struct_dots() (cerr.viewer.pycerr_gui.PyCerrViewer method) on_struct_double_click() (cerr.viewer.pycerr_gui.PyCerrViewer method) on_struct_linewidth() (cerr.viewer.pycerr_gui.PyCerrViewer method) open_pkl() (cerr.viewer.pycerr_gui.PyCerrViewer method) orientationOfDose (cerr.dataclasses.dose.Dose attribute) orientationOfStructure (cerr.dataclasses.structure.Structure attribute) OutputError (cerr.imrtp.dosecalc.MCRecompParams attribute) (cerr.imrtp.dosecalc.montecarlo.MCRecompParams attribute) own_partial (class in cerr.multiViewHelper)

P

padScan() (in module cerr.radiomics.preprocess) paintEvent() (cerr.viewer.pycerr_gui.DoseColorbarWidget method) PARAM_NAMES (in module cerr.imrtp.imrtp_problem) params (cerr.imrtp.imrtp_problem.IMRTProblem attribute) parseContours() (in module cerr.dataclasses.structure) parseDcmHeader() (in module cerr.plan_container) parseScanInfoFields() (in module cerr.dataclasses.scan) parseScanInfoFromDB() (in module cerr.dataclasses.scan) patientAttitude (cerr.dataclasses.scan_info.ScanInfo attribute) PatientBirthDate (cerr.dataclasses.beams.Beams attribute), [1] patientBirthDate (cerr.dataclasses.scan_info.ScanInfo attribute), [1] patientBmi (cerr.dataclasses.scan_info.ScanInfo attribute), [1] PatientID (cerr.dataclasses.beams.Beams attribute), [1] patientID (cerr.dataclasses.scan_info.ScanInfo attribute), [1] patientIdentityRemoved (cerr.dataclasses.scan_info.ScanInfo attribute), [1] PatientName (cerr.dataclasses.beams.Beams attribute) patientName (cerr.dataclasses.dose.Dose attribute), [1] (cerr.dataclasses.scan_info.ScanInfo attribute), [1] (cerr.dataclasses.structure.Structure attribute), [1] PatientPosition (cerr.dataclasses.beams.PatientSetupSeq attribute), [1] patientPosition (cerr.dataclasses.scan_info.ScanInfo attribute) PatientSetupNumber (cerr.dataclasses.beams.PatientSetupSeq attribute) PatientSetupSeq (class in cerr.dataclasses.beams) PatientSetupSequence (cerr.dataclasses.beams.Beams attribute), [1] PatientSex (cerr.dataclasses.beams.Beams attribute), [1] patientSex (cerr.dataclasses.scan_info.ScanInfo attribute), [1] patientSize (cerr.dataclasses.scan_info.ScanInfo attribute), [1] PatientSupportAngle (cerr.dataclasses.beams.ControlPointSequence attribute), [1] patientWeight (cerr.dataclasses.scan_info.ScanInfo attribute), [1] PBMargin (cerr.imrtp.imrtp_problem.IMGoal attribute) pbMarginText() (cerr.imrtp.imrtp_gui.IMRTPGuiWindow method) PBMaxWidth (cerr.imrtp.dosecalc.MCRecompParams attribute) (cerr.imrtp.dosecalc.montecarlo.MCRecompParams attribute) petCorrectedImage (cerr.dataclasses.scan_info.ScanInfo attribute) petCountSource (cerr.dataclasses.scan_info.ScanInfo attribute), [1] petDecayCorrection (cerr.dataclasses.scan_info.ScanInfo attribute)

petDecayCorrectionDateTime (cerr.dataclasses.scan_info.ScanInfo attribute), [1] petNumSlices (cerr.dataclasses.scan_info.ScanInfo attribute), [1] petPrimarySourceOfCounts (cerr.dataclasses.scan_info.ScanInfo attribute) petSeriesType (cerr.dataclasses.scan_info.ScanInfo attribute), [1] philipsActivityConcentrationScaleFactor (cerr.dataclasses.scan_info.ScanInfo attribute), [1], [2] philipsImageUnits (cerr.dataclasses.scan_info.ScanInfo attribute), [1] philipsRescaleIntercept (cerr.dataclasses.scan_info.ScanInfo attribute), [1] philipsRescaleSlope (cerr.dataclasses.scan_info.ScanInfo attribute), [1] philipsSUVScaleFactor (cerr.dataclasses.scan_info.ScanInfo attribute), [1] photonSplitFactor (cerr.imrtp.imrtp_problem.VMCParams attribute) PixelPaddingValue (cerr.dataclasses.beams.Beams attribute), [1] pixelRepresentation (cerr.dataclasses.scan_info.ScanInfo attribute), [1] PlanC (class in cerr.plan_container) PlanC.json_serialize (class in cerr.plan_container) planEditionOfOrigin (cerr.dataclasses.dose.Dose attribute) PlanGroupLength (cerr.dataclasses.beams.Beams attribute) planIDOfOrigin (cerr.dataclasses.dose.Dose attribute) planNumberOfOrigin (cerr.dataclasses.dose.Dose attribute) plot() (cerr.viewer.pycerr_gui.DvhDialog method) plot_slice() (in module tests.test_ibsi2_filters) plotSampleFeatures() (in module cerr.mri_metrics.dce_mri) plotUptake() (in module cerr.mri_metrics.dce_mri) points (cerr.dataclasses.structure.Segment attribute), [1] polyFill() (in module cerr.contour.rasterseg) populatePlanCField() (in module cerr.plan_container) populateRadiopharmaFields() (in module cerr.dataclasses.scan) populateRealWorldFields() (in module cerr.dataclasses.scan) populateScanInfoFields() (in module cerr.dataclasses.scan) positionInScan (cerr.dataclasses.scan_info.ScanInfo attribute) prctile() (in module cerr.utils.statistics) preProcessForRadiomics() (in module cerr.radiomics.preprocess) PrescriptionDescription (cerr.dataclasses.beams.Beams attribute), [1] prescriptionDose (cerr.dataclasses.dose.Dose attribute), [1] previewAngleChanged() (cerr.imrtp.imrtp_gui.IMRTPGuiWindow method) previewDragFinished() (cerr.imrtp.imrtp_gui.IMRTPGuiWindow method) processImage() (in module cerr.radiomics.texture_utils) PyCerrViewer (class in cerr.viewer.pycerr_gui)

Q

QBMidIndexX (cerr.imrtp.dosecalc.qib_data.QIBDataS attribute) (cerr.imrtp.dosecalc.QIBDataS attribute) QBMidIndexY (cerr.imrtp.dosecalc.qib_data.QIBDataS attribute) (cerr.imrtp.dosecalc.QIBDataS attribute) QIB (cerr.imrtp.dosecalc.qib_data.QIBDataS attribute) (cerr.imrtp.dosecalc.QIBDataS attribute) QIB_ENERGIES (in module cerr.imrtp.dosecalc.rtplan)

QIBDataS (class in cerr.imrtp.dosecalc) (class in cerr.imrtp.dosecalc.qib_data) qibEngine() (in module cerr.imrtp.dosecalc) QIBGauss (cerr.imrtp.dosecalc.qib_data.QIBDataS attribute) (cerr.imrtp.dosecalc.QIBDataS attribute) QtViewerWrap (class in cerr.multiViewHelper) quantile() (in module cerr.utils.statistics)

R

RadiationType (cerr.dataclasses.beams.BeamSeq attribute), [1] (cerr.dataclasses.beams.FractionGroupSeq attribute), [1] RandomStep (cerr.imrtp.imrtp_problem.ScatterParams attribute) raster_to_mask() (in module cerr.contour.rasterseg) rasterized (cerr.dataclasses.structure.Structure attribute) rasterSegments (cerr.dataclasses.structure.Structure attribute), [1] readAttribsAndDsets() (in module cerr.plan_container) realWorldMeasurCodeMeaning (cerr.dataclasses.scan_info.ScanInfo attribute), [1] realWorldValueIntercept (cerr.dataclasses.scan_info.ScanInfo attribute), [1] realWorldValueSlope (cerr.dataclasses.scan_info.ScanInfo attribute), [1] recalcDose() (in module cerr.imrtp.dosecalc) (in module cerr.imrtp.dosecalc.recalc) redraw_ruler() (cerr.viewer.pycerr_gui.SliceView method) refBeamNumber (cerr.dataclasses.dose.Dose attribute), [1] RefBeamSeq (cerr.dataclasses.beams.FractionGroupSeq attribute), [1] (class in cerr.dataclasses.beams) ReferencedBeamNumber (cerr.dataclasses.beams.RefBeamSeq attribute) ReferencedDoseSequence (cerr.dataclasses.beams.Beams attribute), [1] referencedFrameOfReferenceUID (cerr.dataclasses.structure.Structure attribute), [1] ReferencedROINumber (cerr.dataclasses.beams.DoseReferenceSeq attribute), [1] ReferencedRTGroupLength (cerr.dataclasses.beams.Beams attribute) referencedSeriesUID (cerr.dataclasses.structure.Structure attribute), [1] ReferencedSOPClassUID (cerr.dataclasses.beams.ReferenceSeq attribute) referencedSopClassUID (cerr.dataclasses.structure.Contour attribute), [1] ReferencedSOPInstanceUID (cerr.dataclasses.beams.ReferenceSeq attribute), [1] referencedSopInstanceUID (cerr.dataclasses.structure.Contour attribute), [1] ReferencedStructureSetSequence (cerr.dataclasses.beams.Beams attribute), [1] ReferenceSeq (class in cerr.dataclasses.beams) refFractionGroupNumber (cerr.dataclasses.dose.Dose attribute), [1] refresh() (cerr.imrtp.imrtp_gui.GeometryPreview method) (cerr.viewer.pycerr_nbviewer.NbViewer method) refresh_views() (cerr.viewer.pycerr_gui.PyCerrViewer method) refreshBeamParams() (cerr.imrtp.imrtp_gui.IMRTPGuiWindow method) refreshBeams() (cerr.imrtp.imrtp_gui.IMRTPGuiWindow method) refreshBrowser() (cerr.imrtp.imrtp_gui.IMRTPGuiWindow method) refreshIMParams() (cerr.imrtp.imrtp_gui.IMRTPGuiWindow method) refreshMCParams() (cerr.imrtp.imrtp_gui.IMRTPGuiWindow method) refreshPreview() (cerr.imrtp.imrtp_gui.IMRTPGuiWindow method) refreshScan() (cerr.imrtp.imrtp_gui.IMRTPGuiWindow method) refreshStructs() (cerr.imrtp.imrtp_gui.IMRTPGuiWindow method) refRTPlanSopInstanceUID (cerr.dataclasses.dose.Dose attribute), [1] refStructSetSopInstanceUID (cerr.dataclasses.dose.Dose attribute), [1] registerEngine() (in module cerr.imrtp.imrtp) registerScans() (in module cerr.registration.register) registrationTool (cerr.dataclasses.deform.Deform attribute)

RegQaDialog (class in cerr.viewer.pycerr_gui) RelationshipGroupLength (cerr.dataclasses.beams.Beams attribute) renameIM() (cerr.imrtp.imrtp_gui.IMRTPGuiWindow method) render_figure() (cerr.viewer.pycerr_nbviewer.NbViewer method) repeatHistory (cerr.imrtp.imrtp_problem.VMCParams attribute) rescaleIntercept (cerr.dataclasses.scan_info.ScanInfo attribute), [1] rescaleSlope (cerr.dataclasses.scan_info.ScanInfo attribute), [1] rescaleType (cerr.dataclasses.scan_info.ScanInfo attribute), [1] reset_all_views() (cerr.viewer.pycerr_gui.PyCerrViewer method) reset_view() (cerr.viewer.pycerr_gui.SliceView method) resizeScanAndMask() (in module cerr.utils.image_proc) resolveIsocenter() (in module cerr.imrtp.imrtp_problem) ReviewDate (cerr.dataclasses.beams.Beams attribute), [1] ReviewerName (cerr.dataclasses.beams.Beams attribute), [1] ReviewGroupLength (cerr.dataclasses.beams.Beams attribute) ReviewTime (cerr.dataclasses.beams.Beams attribute), [1] rlmToScalarFeatures() (in module cerr.radiomics.run_length) roiGenerationAlgorithm (cerr.dataclasses.structure.Structure attribute), [1] roiGenerationDescription (cerr.dataclasses.structure.Structure attribute), [1] ROIInterpretedType (cerr.dataclasses.structure.Structure attribute), [1] roiNumber (cerr.dataclasses.structure.Structure attribute) rot3d90() (in module cerr.radiomics.texture_filters) rotate3dSequence() (in module cerr.radiomics.texture_filters) rotationInvariantFilt() (in module cerr.radiomics.texture_filters) rotationInvariantLawsEnergyFilter() (in module cerr.radiomics.texture_filters) rotationInvariantLawsFilter() (in module cerr.radiomics.texture_filters) rotationInvariantWaveletFilter() (in module cerr.radiomics.texture_filters) round() (in module cerr.utils.statistics) RTBeamLimitingDeviceType (cerr.dataclasses.beams.BeamLimitingDevicePositionSeq attribute) RTOGPBVectorsM (cerr.imrtp.imrtp_problem.IMBeam attribute) rtogVectors2Gantry() (in module cerr.imrtp.dosecalc) (in module cerr.imrtp.dosecalc.qib) RTPlanDate (cerr.dataclasses.beams.Beams attribute), [1] RTPlanGeometry (cerr.dataclasses.beams.Beams attribute), [1] RTPlanLabel (cerr.dataclasses.beams.Beams attribute), [1] RTPlanTime (cerr.dataclasses.beams.Beams attribute), [1] ruler_length() (cerr.viewer.pycerr_gui.SliceView method) rulerChanged (cerr.viewer.pycerr_gui.SliceView attribute) run() (in module cerr.roe.dosimetric_models) run_config() (in module tests.test_ibsi1_features) (in module tests.test_ibsi2_features) run_configs() (in module tests.test_ibsi1_features) run_ibsi_image_filters() (in module tests.test_ibsi2_filters) run_phase2() (in module tests.test_ibsi2_features) run_test() (in module tests.test_ibsi2_filters) runIMRTP() (in module cerr.imrtp.imrtp)

S

sampleCTNums() (cerr.imrtp.dosecalc.raytrace.ScanGrid method) (cerr.imrtp.dosecalc.ScanGrid method) sampleRate (cerr.imrtp.imrtp_problem.Beamlet attribute) save() (cerr.imrtp.imrtp_gui.IMRTPGuiWindow method) (cerr.viewer.pycerr_gui.ContourDialog method) save_pkl() (cerr.viewer.pycerr_gui.PyCerrViewer method) save_screenshot() (cerr.viewer.pycerr_gui.PyCerrViewer method) (cerr.viewer.pycerr_nbviewer.NbViewer method) saveContoursToJson() (cerr.dataclasses.structure.Structure method) saveH5Deform() (in module cerr.plan_container) saveH5Dose() (in module cerr.plan_container) saveH5Header() (in module cerr.plan_container) saveH5Scan() (in module cerr.plan_container) saveH5Structure() (in module cerr.plan_container) saveIM (cerr.imrtp.dosecalc.MCRecompParams attribute) (cerr.imrtp.dosecalc.montecarlo.MCRecompParams attribute) saveIMToPlan() (in module cerr.imrtp.imrtp_problem) saveJson() (cerr.dataclasses.structure.Structure method) (in module cerr.dataclasses.structure) saveNii() (cerr.dataclasses.dose.Dose method) (cerr.dataclasses.scan.Scan method) (cerr.dataclasses.structure.Structure method) saveNiiStructure() (in module cerr.plan_container) saveToH5() (in module cerr.plan_container) scaleIntercept (cerr.dataclasses.scan_info.ScanInfo attribute), [1] scaleSlope (cerr.dataclasses.scan_info.ScanInfo attribute), [1] scan (cerr.plan_container.PlanC attribute), [1] Scan (class in cerr.dataclasses.scan) Scan.json_serialize (class in cerr.dataclasses.scan) scanArray (cerr.dataclasses.scan.Scan attribute), [1] scanArrayInferior (cerr.dataclasses.scan.Scan attribute) scanArraySuperior (cerr.dataclasses.scan.Scan attribute) scanDate (cerr.dataclasses.scan_info.ScanInfo attribute) scanFileName (cerr.dataclasses.scan_info.ScanInfo attribute), [1] ScanGrid (class in cerr.imrtp.dosecalc) (class in cerr.imrtp.dosecalc.raytrace) scanID (cerr.dataclasses.scan_info.ScanInfo attribute) scanInfo (cerr.dataclasses.scan.Scan attribute), [1] ScanInfo (class in cerr.dataclasses.scan_info) scannerType (cerr.dataclasses.scan_info.ScanInfo attribute), [1] scanNumber (cerr.dataclasses.scan_info.ScanInfo attribute) scanType (cerr.dataclasses.scan.Scan attribute), [1] (cerr.dataclasses.scan_info.ScanInfo attribute) scanUID (cerr.dataclasses.scan.Scan attribute), [1] Scatter (cerr.imrtp.imrtp_problem.IMParams attribute) ScatterMethod (cerr.imrtp.imrtp_problem.IMParams attribute) ScatterParams (class in cerr.imrtp.imrtp_problem) scatterThreshold (cerr.imrtp.dosecalc.MCRecompParams attribute) (cerr.imrtp.dosecalc.montecarlo.MCRecompParams attribute) scoreDoseToWater (cerr.imrtp.imrtp_problem.VMCParams attribute) Segment (class in cerr.dataclasses.structure) segments (cerr.dataclasses.structure.Contour attribute), [1] selectBeam() (cerr.imrtp.imrtp_gui.IMRTPGuiWindow method) selScan() (cerr.imrtp.imrtp_gui.IMRTPGuiWindow method) semiQuantFeatures() (in module cerr.mri_metrics.dce_mri) sepsq() (in module cerr.radiomics.shape) seriesDate (cerr.dataclasses.scan_info.ScanInfo attribute), [1] seriesDescription (cerr.dataclasses.scan_info.ScanInfo attribute), [1] seriesInstanceUID (cerr.dataclasses.scan_info.ScanInfo attribute), [1] seriesTime (cerr.dataclasses.scan_info.ScanInfo attribute), [1] set_contour_linewidth() (cerr.viewer.pycerr_gui.PyCerrViewer method) (cerr.viewer.pycerr_nbviewer.NbViewer method) set_crosshairs() (cerr.viewer.pycerr_gui.PyCerrViewer method) (cerr.viewer.pycerr_nbviewer.NbViewer method) set_dose() (cerr.viewer.pycerr_gui.PyCerrViewer method) (cerr.viewer.pycerr_nbviewer.NbViewer method) set_dose_alpha() (cerr.viewer.pycerr_gui.PyCerrViewer method) (cerr.viewer.pycerr_nbviewer.NbViewer method) set_dose_colormap() (cerr.viewer.pycerr_nbviewer.NbViewer method) set_layout() (cerr.viewer.pycerr_gui.PyCerrViewer method) set_lock_views() (cerr.viewer.pycerr_gui.PyCerrViewer method) set_orientation() (cerr.viewer.pycerr_gui.PyCerrViewer method) set_orientation_labels() (cerr.viewer.pycerr_gui.PyCerrViewer method) (cerr.viewer.pycerr_nbviewer.NbViewer method) set_projection() (cerr.viewer.pycerr_gui.SliceView method) set_range() (cerr.viewer.pycerr_gui.SliceView method) set_scan() (cerr.viewer.pycerr_gui.PyCerrViewer method) (cerr.viewer.pycerr_nbviewer.NbViewer method) set_scan_colormap() (cerr.viewer.pycerr_gui.PyCerrViewer method) (cerr.viewer.pycerr_nbviewer.NbViewer method) set_scan_opacity() (cerr.viewer.pycerr_gui.PyCerrViewer method) (cerr.viewer.pycerr_nbviewer.NbViewer method) set_slice() (cerr.viewer.pycerr_gui.PyCerrViewer method) (cerr.viewer.pycerr_nbviewer.NbViewer method) set_structure_dots() (cerr.viewer.pycerr_gui.PyCerrViewer method) (cerr.viewer.pycerr_nbviewer.NbViewer method) set_structures_visible() (cerr.viewer.pycerr_gui.PyCerrViewer method) (cerr.viewer.pycerr_nbviewer.NbViewer method) set_window_level() (cerr.viewer.pycerr_gui.PyCerrViewer method) (cerr.viewer.pycerr_nbviewer.NbViewer method) set_window_preset() (cerr.viewer.pycerr_gui.PyCerrViewer method) (cerr.viewer.pycerr_nbviewer.NbViewer method)

setBeamRayData() (in module cerr.imrtp.dosecalc) (in module cerr.imrtp.dosecalc.raytrace) setBeams() (cerr.viewer.pycerr_gui.PyCerrViewer method) setDose() (cerr.viewer.pycerr_gui.DoseColorbarWidget method) setPlanC() (cerr.viewer.pycerr_gui.PyCerrViewer method) (cerr.viewer.pycerr_nbviewer.NbViewer method) show() (in module cerr.viewer.pycerr_gui) show_about() (cerr.viewer.pycerr_gui.PyCerrViewer method) show_contour_dialog() (cerr.viewer.pycerr_gui.PyCerrViewer method) show_dvh_dialog() (cerr.viewer.pycerr_gui.PyCerrViewer method) show_imrtp_gui() (cerr.viewer.pycerr_gui.PyCerrViewer method) show_reg_dialog() (cerr.viewer.pycerr_gui.PyCerrViewer method) show_roe_gui() (cerr.viewer.pycerr_gui.PyCerrViewer method) showDose() (cerr.imrtp.imrtp_gui.IMRTPGuiWindow method) showNapari() (in module cerr.viewer.pycerr_napari) showNB() (in module cerr.viewer.pycerr_nbviewer) siemensPETDecayCorrectionDateTime (cerr.dataclasses.scan_info.ScanInfo attribute), [1] sigma_100 (cerr.imrtp.imrtp_problem.IMBeam attribute) siteOfInterest (cerr.dataclasses.scan_info.ScanInfo attribute) sizeOfDimension1 (cerr.dataclasses.dose.Dose attribute), [1] (cerr.dataclasses.scan_info.ScanInfo attribute), [1] sizeOfDimension2 (cerr.dataclasses.dose.Dose attribute), [1] (cerr.dataclasses.scan_info.ScanInfo attribute), [1] sizeOfDimension3 (cerr.dataclasses.dose.Dose attribute), [1] skip (cerr.imrtp.imrtp_problem.VMCParams attribute) sliceChanged (cerr.viewer.pycerr_gui.SliceView attribute) sliceNumInf (cerr.dataclasses.scan_info.UniformScanInfo attribute) sliceNumSup (cerr.dataclasses.scan_info.UniformScanInfo attribute) sliceThickness (cerr.dataclasses.scan_info.ScanInfo attribute), [1] SliceView (class in cerr.viewer.pycerr_gui) smooth2DContour() (in module cerr.contour.contour_processing) smoothResample() (in module cerr.mri_metrics.dce_mri) smoothStructure() (in module cerr.contour.contour_processing) sobelFilter() (in module cerr.radiomics.texture_filters) Softening (cerr.imrtp.dosecalc.MCRecompParams attribute) (cerr.imrtp.dosecalc.montecarlo.MCRecompParams attribute) solutionDescription (cerr.imrtp.imrtp_problem.IMSolution attribute) solutions (cerr.imrtp.imrtp_problem.IMRTProblem attribute) sopClassUID (cerr.dataclasses.scan_info.ScanInfo attribute), [1] SOPInstanceUID (cerr.dataclasses.beams.Beams attribute), [1] sopInstanceUID (cerr.dataclasses.scan_info.ScanInfo attribute), [1] SourceAxisDistance (cerr.dataclasses.beams.BeamSeq attribute), [1] sourceModel (cerr.imrtp.dosecalc.MCRecompParams attribute) (cerr.imrtp.dosecalc.montecarlo.MCRecompParams attribute) sourcePos() (cerr.imrtp.imrtp_problem.IMBeam method) SourceToSurfaceDistance (cerr.dataclasses.beams.ControlPointSequence attribute), [1] spectrum (cerr.imrtp.imrtp_problem.VMCParams attribute) spectrum_File (cerr.imrtp.dosecalc.MCRecompParams attribute) (cerr.imrtp.dosecalc.montecarlo.MCRecompParams attribute) splitPhotons (cerr.imrtp.imrtp_problem.VMCParams attribute) starInterp() (in module cerr.utils.custom_colormaps) start_reg_qa() (cerr.viewer.pycerr_gui.PyCerrViewer method) stats() (in module cerr.radiomics.first_order) statusbarMsg() (cerr.imrtp.imrtp_gui.IMRTPGuiWindow method) stop_reg_qa() (cerr.viewer.pycerr_gui.PyCerrViewer method) strokeFinished (cerr.viewer.pycerr_gui.SliceView attribute) strSampleRate() (cerr.imrtp.imrtp_gui.IMRTPGuiWindow method) structDoseMetric() (in module cerr.imrtp.dosecalc) (in module cerr.imrtp.dosecalc.recalc) structName (cerr.imrtp.imrtp_problem.IMGoal attribute) structNum (cerr.imrtp.imrtp_problem.IMGoal attribute) structSetSopInstanceUID (cerr.dataclasses.structure.Structure attribute), [1] structure (cerr.plan_container.PlanC attribute), [1] Structure (class in cerr.dataclasses.structure) structureColor (cerr.dataclasses.structure.Structure attribute), [1] structureDescription (cerr.dataclasses.structure.Structure attribute), [1] structureEdition (cerr.dataclasses.structure.Structure attribute) structureFileFormat (cerr.dataclasses.structure.Structure attribute), [1] structureFileName (cerr.dataclasses.structure.Structure attribute), [1] structureFormat (cerr.dataclasses.structure.Structure attribute) structureName (cerr.dataclasses.structure.Structure attribute), [1] (cerr.imrtp.imrtp_problem.Beamlet attribute) strUID (cerr.dataclasses.structure.Structure attribute), [1] (cerr.imrtp.imrtp_problem.Beamlet attribute) (cerr.imrtp.imrtp_problem.IMGoal attribute) studyDate (cerr.dataclasses.scan_info.ScanInfo attribute), [1] studyDescription (cerr.dataclasses.scan_info.ScanInfo attribute), [1] studyInstanceUID (cerr.dataclasses.dose.Dose attribute), [1] (cerr.dataclasses.scan_info.ScanInfo attribute), [1] studyNumberOfOrigin (cerr.dataclasses.dose.Dose attribute) (cerr.dataclasses.scan_info.ScanInfo attribute) (cerr.dataclasses.structure.Structure attribute) studyTime (cerr.dataclasses.scan_info.ScanInfo attribute), [1] sum() (in module cerr.dataclasses.dose) supInfScansCreated (cerr.dataclasses.scan_info.UniformScanInfo attribute) surfaceExpand() (in module cerr.utils.mask) suvType (cerr.dataclasses.scan_info.ScanInfo attribute), [1] swt() (in module cerr.radiomics.texture_filters) swt2() (in module cerr.radiomics.texture_filters) sync_base() (cerr.viewer.pycerr_gui.RegQaDialog method) szmToScalarFeatures() (in module cerr.radiomics.size_zone)

T

TableTopEccentricAngle (cerr.dataclasses.beams.ControlPointSequence attribute), [1] TableTopEccentricRotationDirection (cerr.dataclasses.beams.ControlPointSequence attribute), [1] tapeOfOrigin (cerr.dataclasses.scan_info.ScanInfo attribute) targBoxClicked() (cerr.imrtp.imrtp_gui.IMRTPGuiWindow method) targetGoals() (cerr.imrtp.imrtp_problem.IMRTProblem method) TargetPrescriptionDose (cerr.dataclasses.beams.DoseReferenceSeq attribute), [1] temporalPositionIndex (cerr.dataclasses.scan_info.ScanInfo attribute), [1] test_config_a_original_feats_all_dirs() (in module tests.test_ibsi1_features) test_config_a_original_feats_merged_texture() (in module tests.test_ibsi1_features) test_config_b_bilinear_interp_feats_all_dirs() (in module tests.test_ibsi1_features) test_config_b_bilinear_interp_feats_merged_texture() (in module tests.test_ibsi1_features) test_config_c_trilinear_interp_feats_all_dirs() (in module tests.test_ibsi1_features) test_config_c_trilinear_interp_feats_merged_texture() (in module tests.test_ibsi1_features) test_dose_export_import() (in module tests.test_nii_export_import) test_gabor_filters_25d() (in module tests.test_ibsi2_filters) test_gabor_filters_2d() (in module tests.test_ibsi2_filters) test_laws_filter_2d() (in module tests.test_ibsi2_filters) test_laws_filters_3d() (in module tests.test_ibsi2_filters) test_LoG_filter_2d() (in module tests.test_ibsi2_filters) test_LoG_filters_3d() (in module tests.test_ibsi2_filters) test_mean_filt_2d() (in module tests.test_ibsi2_filters) test_mean_filters_3d() (in module tests.test_ibsi2_filters) test_rot_inv_laws_energy_filter_2d() (in module tests.test_ibsi2_filters) test_rot_inv_laws_energy_filters_3d() (in module tests.test_ibsi2_filters) test_rot_inv_laws_filter_2d() (in module tests.test_ibsi2_filters) test_rot_inv_laws_filters_3d() (in module tests.test_ibsi2_filters) test_rot_inv_wavelet_filters_3d() (in module tests.test_ibsi2_filters) test_scan_export_import() (in module tests.test_nii_export_import) test_stats_LoG_2d() (in module tests.test_ibsi2_features) test_stats_LoG_3d() (in module tests.test_ibsi2_features) test_stats_mean_2d() (in module tests.test_ibsi2_features)

test_stats_mean_3d() (in module tests.test_ibsi2_features) test_stats_original() (in module tests.test_ibsi2_features) test_stats_resampled() (in module tests.test_ibsi2_features) test_stats_rot_inv_laws_energy_2d() (in module tests.test_ibsi2_features) test_stats_rot_inv_laws_energy_3d() (in module tests.test_ibsi2_features) test_wavelet_filters_3d() (in module tests.test_ibsi2_filters) tests module tests.test_ibsi1_features module tests.test_ibsi2_features module tests.test_ibsi2_filters module tests.test_nii_export_import module Threshold (cerr.imrtp.imrtp_problem.ScatterParams attribute) thumbnails (cerr.dataclasses.scan.Scan attribute) TongueGroove (cerr.imrtp.dosecalc.MCRecompParams attribute) (cerr.imrtp.dosecalc.montecarlo.MCRecompParams attribute) TOP (cerr.viewer.pycerr_gui.DoseColorbarWidget attribute) transferProtocol (cerr.dataclasses.dose.Dose attribute) (cerr.dataclasses.scan_info.ScanInfo attribute) (cerr.dataclasses.structure.Structure attribute) transformScan() (in module cerr.utils.image_proc) transM (cerr.dataclasses.dose.Dose attribute), [1] (cerr.dataclasses.scan.Scan attribute) TreatmentDeliveryType (cerr.dataclasses.beams.BeamSeq attribute), [1] TreatmentSites (cerr.dataclasses.beams.Beams attribute), [1] triggerTime (cerr.dataclasses.scan_info.ScanInfo attribute), [1] trimeshSurfaceArea() (in module cerr.radiomics.shape)

U

undo() (cerr.viewer.pycerr_gui.ContourDialog method) uniformScanInfo (cerr.dataclasses.scan.Scan attribute) UniformScanInfo (class in cerr.dataclasses.scan_info) unitNumber (cerr.dataclasses.dose.Dose attribute) (cerr.dataclasses.scan_info.ScanInfo attribute) unpadScan() (in module cerr.radiomics.preprocess)

update_cross() (cerr.multiViewHelper.CrossWidget method) updateMirror() (in module cerr.viewer.pycerr_napari) UseFlatFilter (cerr.imrtp.dosecalc.MCRecompParams attribute) (cerr.imrtp.dosecalc.montecarlo.MCRecompParams attribute) uses_vtk (cerr.viewer.pycerr_gui.SliceView property) useWedge (cerr.imrtp.dosecalc.MCRecompParams attribute) (cerr.imrtp.dosecalc.montecarlo.MCRecompParams attribute)

V

vectorNorm3d() (in module cerr.radiomics.shape) version (cerr.dataclasses.header.Header attribute) versionNumberOfProgram (cerr.dataclasses.dose.Dose attribute) verticalGridInterval (cerr.dataclasses.dose.Dose attribute), [1] viewReset (cerr.viewer.pycerr_gui.SliceView attribute)

visible (cerr.dataclasses.structure.Structure attribute) VMC (cerr.imrtp.imrtp_problem.IMParams attribute) vmcEngine() (in module cerr.imrtp.dosecalc.montecarlo) VMCParams (class in cerr.imrtp.imrtp_problem) voxelThickness (cerr.dataclasses.scan_info.ScanInfo attribute), [1] Vx() (in module cerr.dvh)

W

waitbar() (cerr.imrtp.imrtp_gui.IMRTPGuiWindow method) warpDose() (in module cerr.registration.register) warpScan() (in module cerr.registration.register) warpStructures() (in module cerr.registration.register) waveletFilter() (in module cerr.radiomics.texture_filters) wextend() (in module cerr.radiomics.preprocess)

windowCenter (cerr.dataclasses.scan_info.ScanInfo attribute), [1] windowWidth (cerr.dataclasses.scan_info.ScanInfo attribute), [1] wkeep() (in module cerr.radiomics.texture_filters) writeFeaturesToFile() (in module cerr.radiomics.ibsi1) writer (cerr.dataclasses.dose.Dose attribute), [1] (cerr.dataclasses.header.Header attribute) (cerr.dataclasses.structure.Structure attribute), [1]

X

x (cerr.imrtp.imrtp_problem.Isocenter attribute) xcoordOfNormaliznPoint (cerr.dataclasses.dose.Dose attribute), [1] xOffset (cerr.dataclasses.deform.Deform attribute) (cerr.dataclasses.scan_info.ScanInfo attribute), [1]

xPBPosV (cerr.imrtp.imrtp_problem.IMBeam attribute) xRel (cerr.imrtp.imrtp_problem.IMBeam attribute) xyDownsampleIndex (cerr.imrtp.imrtp_problem.IMParams attribute) xySampleRate (cerr.imrtp.imrtp_problem.IMGoal attribute) xytom() (in module cerr.contour.rasterseg)

Y

y (cerr.imrtp.imrtp_problem.Isocenter attribute) ycoordOfNormaliznPoint (cerr.dataclasses.dose.Dose attribute), [1] yOffset (cerr.dataclasses.deform.Deform attribute) (cerr.dataclasses.scan_info.ScanInfo attribute), [1]

yPBPosV (cerr.imrtp.imrtp_problem.IMBeam attribute) yRel (cerr.imrtp.imrtp_problem.IMBeam attribute)

Z

z (cerr.imrtp.imrtp_problem.Isocenter attribute) zcoordOfNormaliznPoint (cerr.dataclasses.dose.Dose attribute), [1] zRel (cerr.imrtp.imrtp_problem.IMBeam attribute)

zValue (cerr.dataclasses.scan_info.ScanInfo attribute), [1] zValues (cerr.dataclasses.dose.Dose attribute), [1] zValuesV (cerr.dataclasses.deform.Deform attribute)