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intensity_projection.md

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Intensity projection

CLIJx-Assistant has these intensity projections in Z available:

  • Maximum Z Projection
  • Minimum Z Projection
  • Mean Z Projection
  • Mean Z Projection of pixels above a given threshold
  • Median Z Projection
  • Standard Deviation Z Projection

You can increase contrast in visualisation of your sample by executing background subtraction in advance.

How to do intensity projections

Open your time lapse data set. Start the CLIJx-assistant and follow these steps:

  • Your dataset
    • CLIJx-Assistant Starting point
      • Background subtraction
        • Maximum Z Projection

Furthermore, if you want to project in different directions, consider these methods:

  • Reslice Left
  • Reslice Right
  • Reslice Top
  • Reslice Bottom
  • Transpose XY
  • Transpose XZ
  • Transpose YZ
<iframe src="images/incubator__working_principle.mp4" width="540" height="260"></iframe> [Download video](images/incubator__working_principle.mp4) [Image data source: Daniela Vorkel, Myers lab, CSBD / MPI CBG]

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