New Extensibility Tools for Scripting in ImageJ
Authors/Creators
- 1. Laboratory for Optical and Computational Instrumentation (LOCI) Morgridge Institute for Research Department of Biomedical Engineering, University of Wisconsin-Madison, Madison, WI, USA
- 2. Laboratory for Optical and Computational Instrumentation (LOCI)
- 3. Department of Oncology, University of Wisconsin at Madison
Description
This is the set of sample data (here) and scripts (uw-loci/ScriptingExampleForFLIMJandOps) needed to run the protocols in the New Extensibility Tools for Scripting in ImageJ paper available at:
- Add publication link once known
The Protocols and the Required Files for them are:
Basic Protocol 1: Using PyImageJ for FLIM Processing
- BP1_PyImageJ.ipynb
- read_wiscscan_sdt.py
- epithelial_human_FLIM.sdt
Alternate Protocol 1: Groovy FLIMJ in Jupyter Notebooks
- AP1_FLIM_Notebook.ipynb
- epithelial_human_FLIM.sdt
Basic Protocol 2: Using ImageJ Ops for Image Deconvolution
- Decon_richardsonLucyTV.py
- HeLa_microtubules.tif
Support Protocol 1: Using ImageJ Ops Matching Feature for Image Inversion
- protocol_subprocedure_1.groovy
- SUM_sp2_gag_still_KIP.tif
Support Protocol 2: Headless ImageJ Deconvolution
- Decon_richardsonLucyTV_headless.py
- HeLa_microtubules.tif