applied chest imaging laboratory

ParenchymalAnalysisAChestImagingPlatformSlicerExtensionmodule

AppliedChestImagingLaboratoryBoston,Massachusetts.USA

AppliedChestImagingLaboratory

• Goal:TheparenchymaanalysismoduleperformsdensitometryinchestCTscansbyisolatingthelungregionandcomputingdifferentphenotypesbasedonthehistogramofthedensitymeasurements.

• Densitometryisusedtoquantify:• Emphysema:Emphysemaiscomputedinfullinspiratoryscansasthepercentageofvoxelsbelowagiventhreshold,typically-950HUor-910HU.Othersurrogatemetricsofemphysemaaremeanlungdensityandlungmass(meanlungdensity*volume)

• GasTrapping:Gastrappingiscomputedinexpiratoryscansasthepercentageofvoxelsbelow-856HU.

• InterstitialLungDisease:ILDiscomputedinfullinspiratoryscansasthepercentageofvoxelsbetween-600HUand-250HUs.

Overview

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ParenchymaAnalysis

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1- SelectaninputCTimage

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2- Ifavailable,selectthepartialLungLabelMap fortheselectedinputCTTip:IfNone,anewLabelMap wouldbeautomaticallycreatedduringtheanalysis

Note:WhenapartialLungLabelMAp isalreadyselected,optionsforlabelmapcreationaredisabled.

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3- Filteringoptions.Tip:Bydefaultfilteringissetto”off”,turnto“on”toactivatefilter

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ParenchymaAnalysisTip:whenfilteringis”on”anewframeopensup

Selectfilter:non-localmeans(NLM),medianorGaussianfilter

Selectwhethertoapplyfilterin2Dor3D

Selectfilteringstrength:Smooth,medium,Heavy

Check“FilterforphenotypeAnalysis”iffilteringshouldnotbeusedforcreatingthelabelmap

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CreatingpartialLungLabelMap.Selectmethod.Tip:Slowmethodtakesmoretimetofinishbutismoreaccurate.

8- ClickApplytostarttheparenchymaanalysis

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Thelungdensityhistogramiscreatedforeachregion

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Atablewiththemetricsforeachregionisalsocreatedandpresentedontheinterface

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IntheHistogramSection,regionswhosehistogramhastobeshowncanbechecked

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ParenchymaAnalysisViewaChartwiththeobtainedresults

10- Clickon“Chart”toseetheresultsoftheselectedstatistic

9- Selectthedesiredstatistic

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Achartshowingtheselectedstatisticsforeachregioniscreated

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Saveoption:clickon“Save”tosavethecomputedstatistics.

Openoption:Clickon“open”toopenpreviouslydonestatistics

Exportoption:Click“export”toexportthecomputedstatistics

Click“cleancaché”toremoveallsavedstatistics

AppliedChestImagingLaboratory

• TheParenchymalAnalysismoduleispartoftheChestImagingPlatformextensionfor3DSlicer(www.chestimagingplatform.org)

• ThisworkisfundedbytheNationalHeart,Lung,AndBloodInstituteoftheNationalInstitutesofHealthunderAwardNumberR01HL116931.ThecontentissolelytheresponsibilityoftheauthorsanddoesnotnecessarilyrepresenttheofficialviewsoftheNationalInstitutesofHealth.

• Contributors:• Pietro Nardelli• AppliedChestImagingLaboratory• BrighamandWomen'sHospital• HarvardMedicalSchool

ParenchymalAnalysis

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