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Merge branch 'add_volumetric_brukertiff' of CatalystNeuro/ophys_testing_data into main

Cody Baker 10 kuukautta sitten
vanhempi
commit
498600e4cd
12 muutettua tiedostoa jossa 325 lisäystä ja 1 poistoa
  1. 318 0
      imaging_datasets/BrukerTif/NCCR32_2022_11_03_IntoTheVoid_t_series-005/NCCR32_2022_11_03_IntoTheVoid_t_series-005.xml
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      imaging_datasets/BrukerTif/NCCR32_2022_11_03_IntoTheVoid_t_series-005/NCCR32_2022_11_03_IntoTheVoid_t_series-005_Cycle00001_Ch2_000001.ome.tif
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      imaging_datasets/BrukerTif/NCCR32_2022_11_03_IntoTheVoid_t_series-005/NCCR32_2022_11_03_IntoTheVoid_t_series-005_Cycle00001_Ch2_000002.ome.tif
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      imaging_datasets/BrukerTif/NCCR32_2022_11_03_IntoTheVoid_t_series-005/NCCR32_2022_11_03_IntoTheVoid_t_series-005_Cycle00002_Ch2_000001.ome.tif
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      imaging_datasets/BrukerTif/NCCR32_2022_11_03_IntoTheVoid_t_series-005/NCCR32_2022_11_03_IntoTheVoid_t_series-005_Cycle00002_Ch2_000002.ome.tif
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      imaging_datasets/BrukerTif/NCCR32_2022_11_03_IntoTheVoid_t_series-005/NCCR32_2022_11_03_IntoTheVoid_t_series-005_Cycle00003_Ch2_000001.ome.tif
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      imaging_datasets/BrukerTif/NCCR32_2022_11_03_IntoTheVoid_t_series-005/NCCR32_2022_11_03_IntoTheVoid_t_series-005_Cycle00003_Ch2_000002.ome.tif
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      imaging_datasets/BrukerTif/NCCR32_2022_11_03_IntoTheVoid_t_series-005/NCCR32_2022_11_03_IntoTheVoid_t_series-005_Cycle00004_Ch2_000001.ome.tif
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      imaging_datasets/BrukerTif/NCCR32_2022_11_03_IntoTheVoid_t_series-005/NCCR32_2022_11_03_IntoTheVoid_t_series-005_Cycle00004_Ch2_000002.ome.tif
  10. BIN
      imaging_datasets/BrukerTif/NCCR32_2022_11_03_IntoTheVoid_t_series-005/NCCR32_2022_11_03_IntoTheVoid_t_series-005_Cycle00005_Ch2_000001.ome.tif
  11. BIN
      imaging_datasets/BrukerTif/NCCR32_2022_11_03_IntoTheVoid_t_series-005/NCCR32_2022_11_03_IntoTheVoid_t_series-005_Cycle00005_Ch2_000002.ome.tif
  12. 7 1
      imaging_datasets/BrukerTif/README.md

+ 318 - 0
imaging_datasets/BrukerTif/NCCR32_2022_11_03_IntoTheVoid_t_series-005/NCCR32_2022_11_03_IntoTheVoid_t_series-005.xml

@@ -0,0 +1,318 @@
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+      </PVStateShard>
+    </Frame>
+    <Frame relativeTime="0.339319659" absoluteTime="7.04931965900004" index="2" parameterSet="CurrentSettings">
+      <File channel="2" channelName="Ch2" filename="NCCR32_2022_11_03_IntoTheVoid_t_series-005_Cycle00004_Ch2_000002.ome.tif" />
+      <ExtraParameters lastGoodFrame="0" />
+      <PVStateShard>
+        <PVStateValue key="framePeriod" value="0.048474237" />
+        <PVStateValue key="laserPower">
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+          <IndexedValue index="1" value="0" description="1064 Axon" />
+          <IndexedValue index="2" value="0" description="Monaco" />
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+        <PVStateValue key="positionCurrent">
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+          <SubindexedValues index="YAxis">
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+        <PVStateValue key="scanLinePeriod" value="6.3128E-05" />
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+    </Frame>
+  </Sequence>
+  <Sequence type="TSeries ZSeries Element" cycle="5" time="11:25:42.1444112" bidirectionalZ="False" xYStageGridDefined="False" xYStageGridNumXPositions="0" xYStageGridNumYPositions="0" xYStageGridOverlapPercentage="10" xYStageGridXOverlap="10" xYStageGridYOverlap="10">
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+    </Frame>
+    <Frame relativeTime="0.436268133" absoluteTime="7.14626813300004" index="2" parameterSet="CurrentSettings">
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+      <ExtraParameters lastGoodFrame="0" />
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+      </PVStateShard>
+    </Frame>
+  </Sequence>
+</PVScan>

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BIN
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BIN
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BIN
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BIN
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BIN
imaging_datasets/BrukerTif/NCCR32_2022_11_03_IntoTheVoid_t_series-005/NCCR32_2022_11_03_IntoTheVoid_t_series-005_Cycle00005_Ch2_000002.ome.tif


+ 7 - 1
imaging_datasets/BrukerTif/README.md

@@ -3,6 +3,12 @@
 This format consists of multiple OME-TIF image files (.ome.tif files) and configuration parameters in XML format (.xml and/or .env files).
 Each OME-TIF file contains a single a frame, the order and timing of frames and other metadata can be retrieved from the XML file.
 
+The following examples were shared with us by the Pinto lab.
+
 ## NCCR32_2023_02_20_Into_the_void_t_series_baseline-000
 
-This folder contains the first 10 tiffs from a 2P recording with a single imaging plane (and one color channel) that the Pinto lab shared with us. The XML file contains the order and timing of images and other useful metadata.
+This folder contains the first 10 tiffs from a 2P recording with a single imaging plane (and one color channel). The XML file contains the order and timing of images and other useful metadata.
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+## NCCR32_2022_11_03_IntoTheVoid_t_series-005
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+This folder contains first 10 tiffs (5 frames from two imaging planes) from a volumetric 2P recording. The XML file contains the order and timing of images, the number of imaging planes and other useful metadata.