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saenopy 1.0.7 documentation
saenopy 1.0.7 documentation

Contents

  • 3D TFM
    • Interface
    • Parameters
      • Detect Deformations
      • Create Finite Element Mesh
      • Material Parameters
      • Regularisation Parameters
    • Theory
      • Material
      • Regularization Mode
    • Examples
      • Classic TFM (liver fibroblasts)
      • Dynamic TFM (immune cells)
      • Microbeads to Detect Matrix Deformations
      • Multicellular TFM (intestinal organoids)
      • Brightfield TFM & Cropped Input
    • API
      • Read Files with Pyhton
  • 2.5D Spheroid
    • Theory
    • Interface
    • Parameters
      • Detect Deformations
      • Calculate Forces
    • API
  • 2.5D Orientation
    • Theory
    • Interface
    • Parameters
      • Segmentation
      • Orientation
    • API
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Examples¶

These examples provide data sets to test saenopy and see its various applications.

Classic TFM (liver fibroblasts)

Classic TFM (liver fibroblasts)

Dynamic TFM (immune cells)

Dynamic TFM (immune cells)

Microbeads to Detect Matrix Deformations

Microbeads to Detect Matrix Deformations

Multicellular TFM (intestinal organoids)

Multicellular TFM (intestinal organoids)

Brightfield TFM & Cropped Input

Brightfield TFM & Cropped Input

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Classic TFM (liver fibroblasts)
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Regularization Mode
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