Imaris Python Extension to export extended SWC files from Imaris filaments. The output SWC file contains an additional column with label IDs linking to Imaris Surfaces. Features of Imaris Surfaces are exported in seperat tab-separated files.
⚠️ Project moved into IOF-PyImaris
- Setup Imaris Python 3.7 extensions
- Place
export_swc_with_suface_intersection.pyto your Imaris Python 3.7 library folder
- Open Imaris dataset containing surfaces and a filament annotation
- Choose
Image Processing -> Export filament as SWC with Surface Interection - Select Surfaces to export
For a image with name my-image.ims containing and selected surface called my-surface the following output will be created:
- my-image.extended.swc`
- my-image_my-surface.tab
The .extended.swc contains extra columns for each surface linking to label IDs. Features of Surfaces with their corresponding Label ID are stored in the .tab file.
- SWC export code is adapted from PyImarisSWC by Sarun Gulyanon
- Discussion at image.sc