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Ticket #1878 (closed feature: moved)

Opened 2013-05-20T10:09:09-05:00

Last modified 2013-10-29T15:04:04-05:00

Plugins to support

Reported by: bdezonia Owned by: bdezonia
Priority: major Milestone: imagej2-b8-analysis
Component: Analysis Plugins Version:
Severity: serious Keywords:
Cc: Blocked By: #1568, #2017, #2018
Blocking: #1456


Some OME users have requested that we endeavor to make ImageJ2 compatible with certain plugins. If possible we should preferentially support them. This ticket is a placeholder feature ticket. More specific blocking tickets should be hatched as plans for the support of these plugins is planned.

The list of mentioned plugins include:

  • Image/stacks/Z project
  • Image/stacks/orthogonal views
  • stacks/tools/combine
  • stack/tools/slice remover
  • image/transform/ "all the different options"
  • image/adjust/threshold
  • process/binary/make binary
  • process/math/ "all the different options"
  • process/image calculator
  • analyse/tools/ROI manager
  • analyse/set measurements
  • analyse/measure
  • process/macros/run "used with custom macros"
  • denoising (bilateral filter)
  • deconvolution (deconvolution lab and/or Bob Dougherty's iterative 3D)
  • normalization (normalize local contrast, quantile-based?)
  • enhance local contrast (CLAHE in 3D)
  • 3D spatial filters (mean, median, gaussian, convolve)
  • 3D FFT and bandpass
  • registration (stackreg, turboreg)
  • SPIM registration & multi-view fusion
  • FeatureJ (Laplacian, Hessian) and/or surfaceness, tubeness, vesselness
  • Weka machine learning / segmentation
  • Tracking (TrackMate)
  • colocalization: coloc_2, JACoP
  • batch macro runner

For more context regarding the specific plugin list and the history of these ideas see

Change History

comment:1 Changed 2013-10-14T13:23:46-05:00 by bdezonia

  • Blocked By 1568 added

comment:2 Changed 2013-10-29T15:01:21-05:00 by bdezonia

  • Blocked By 2017 added

comment:3 Changed 2013-10-29T15:04:04-05:00 by bdezonia

  • Blocked By 2018 added

comment:1 Changed 2014-08-18T12:26:53-05:00 by curtis

  • Status changed from new to closed
  • Resolution set to moved