<!--Created by Vision4D 4.1.2 tags/4.1.2-release^0@98c73da4661fb18d597af2e61196cc33ab6a833f-->
<pipeline version="4.0" created="2024-07-23T14:34:46.3025371Z" modified="2026-04-03T14:39:49.3038131-04:00">
  <operations>
    <operation type-id="arivis.analysis.selection" id="arivis.analysis.selection1">
      <outputs>[{"Channels":[{"v":1,"id":"arivis.analysis.selection1.0.0","p":null,"n":"AF5682","a":true}]},{"Channels":[]},{"ObjectTags":[]}]</outputs>
      <settings>{"Document":"G:\\jove_data_WM1liver_488_568_1andahalfglass\\jove_03182026_data_ANALYSES01to10\\SISconverted\\New-03-Airyscan Processing-03.sis","ScopeID":"0","PixelSize":{"X":0.048875894397497177,"Y":0.048875894397497177,"Z":0.10000000149011612},"PixelType":1,"ChannelCount":1,"Bounds":"0, 0, 1597, 1597","Channels":"1","Planes":"1-56","Frames":"1","SelectionHint":3,"Zoom":1.0,"ZoomXYOnly":false,"CropToBounds":false,"LegacyMode":false}</settings>
    </operation>
    <operation type-id="arivis.analysis.voxel.Denoising" id="arivis.analysis.voxel.Denoising1" name="Denoising">
      <inputs>[{"Channels":[{"v":1,"id":"arivis.analysis.selection1.0.0"}]}]</inputs>
      <outputs>[{"Channels":[{"v":1,"id":"arivis.analysis.voxel.Denoising1.0.0","p":"arivis.analysis.selection1.0.0","n":"Denoising (Channel #1)","a":true}]}]</outputs>
      <settings algorithmId="arivis.analysis.imagetoimage.denoising.ParticleEnhancement" version="1.0" OutputMode="1" OutputFile="" CreateNewChannels="True" NewChannelNamePattern="$o ($n)">
        <strategy planewise="False" />
        <filter>{"Lambda":0.5,"UseLegacyMode":false,"Diameter":5.4246337898075581}</filter>
      </settings>
    </operation>
    <operation type-id="arivis.analysis.voxelresult" id="arivis.analysis.voxelresult1">
      <inputs>[{"Channels":[{"v":1,"id":"arivis.analysis.selection1.0.0"},{"v":1,"id":"arivis.analysis.voxel.Denoising1.0.0"}]}]</inputs>
      <outputs>[{"Channels":[{"v":1,"id":"arivis.analysis.voxelresult1.0.0","p":"arivis.analysis.selection1.0.0","n":"AF5682","a":true},{"v":1,"id":"arivis.analysis.voxelresult1.0.1","p":"arivis.analysis.voxel.Denoising1.0.0","n":"Denoising (Channel #1)","a":true}]},{}]</outputs>
      <settings mode="1" useForAnnotations="false" filename="" scopename="" autochannels="true" />
    </operation>
    <operation type-id="arivis.analysis.segmentation.BlobFinder" id="arivis.analysis.segmentation.BlobFinder1" name="Blob Finder">
      <inputs>[{"Channels":[{"v":1,"id":"arivis.analysis.voxelresult1.0.1"}]}]</inputs>
      <outputs>[{"ObjectTags":[{"v":1,"id":"arivis.analysis.segmentation.BlobFinder1.0.0","p":null,"n":"Mitochondria","a":true,"cm":2,"c":"Cyan"}]}]</outputs>
      <settings>{"Level":0.35294762254011597,"Diameter":0.24437947198748589,"Threshold":0.25,"Normalization":"FirstTimePointGlobal","Minimum":0.0,"Maximum":3922.0,"PerformPlaneWise":false,"Connectivity":"FullXY","AllowHoles":false,"ObjectNamePattern":"$t #$I ($o)","UseExponentialNormalization":true}</settings>
    </operation>
    <operation type-id="arivis.analysis.store.ExportAnnotation" id="arivis.analysis.store.ExportAnnotation1" name="Export Object Features">
      <inputs>[{"ObjectTags":[{"v":1,"id":"arivis.analysis.segmentation.BlobFinder1.0.0"}]}]</inputs>
      <settings version="3.1">{"File":"G:\\jove_data_WM1liver_488_568_1andahalfglass\\jove_03182026_data_ANALYSES01to10\\New03-pipelinev4.xlsx","Features":[{"FeatureId":"id","ValueIndex":0},{"FeatureId":"arivis.analysis.features.name","ValueIndex":0},{"FeatureId":"arivis.analysis.features.volume","ValueIndex":0},{"FeatureId":"arivis.analysis.features.volume","ValueIndex":1},{"FeatureId":"arivis.analysis.features.volume","ValueIndex":2},{"FeatureId":"arivis.analysis.features.surface-area","ValueIndex":0},{"FeatureId":"arivis.analysis.features.surface-area","ValueIndex":1},{"FeatureId":"arivis.analysis.features.sphericity","ValueIndex":0},{"FeatureId":"arivis.analysis.features.sphericity","ValueIndex":1},{"FeatureId":"arivis.analysis.features.sphericity","ValueIndex":2}],"Details":null,"Mode":0}</settings>
    </operation>
    <operation type-id="arivis.analysis.store.ExportLabelImages" id="arivis.analysis.store.ExportLabelImages1" name="Export Objects to Labeled Images">
      <inputs>[{"ObjectTags":[{"v":1,"id":"arivis.analysis.segmentation.BlobFinder1.0.0"}]}]</inputs>
      <settings>{"FileName":"G:\\jove_data_WM1liver_488_568_1andahalfglass\\jove_03182026_data_ANALYSES01to10\\New-03-pipelinev4.tiff","ConversionMode":0,"SkipEmptyPlanes":false,"FileFormat":"OmeTiffFile"}</settings>
    </operation>
    <operation type-id="arivis.analysis.store.StoreAnnotation" id="arivis.analysis.store.StoreAnnotation1">
      <inputs>[{"ObjectTags":[{"v":1,"id":"arivis.analysis.segmentation.BlobFinder1.0.0"}]}]</inputs>
      <settings version="V_2_12_5">{"NamePattern":"$n","TagPattern":"$n","TagsToAdd":null,"TagsToDelete":null,"PreserveAllTags":true,"KeepOnUndo":false}</settings>
    </operation>
    <operation type-id="arivis.analysis.endOfPipeline" id="arivis.analysis.endOfPipeline1">
      <settings />
    </operation>
  </operations>
  <layout>
    <entry name="arivis.analysis.store.StoreAnnotation1">[]</entry>
    <entry name="_viewpartstates">arivis.analysis.selection1=advanced
arivis.analysis.voxel.Denoising1=advanced
arivis.analysis.voxelresult1=collapsed
arivis.analysis.store.StoreAnnotation1=advanced
</entry>
  </layout>
  <features><![CDATA[{"Version":"3.1","Features":[]}]]></features>
</pipeline>