SNT-4.1.4

Improved:

• Added 'Convex hull' option to Reconstruction Plotter actions
• Better menu organization in Reconstruction Viewer controls

Fixed:

• Tables not being displayed by some commands (#131, reported by @alexyangalexyang)

Full Changelog: SNT-4.1.3...SNT-4.1.4
Compiled artifact (without dependencies): SNT-4.1.4.jar

SNT-4.1.3

Improved:

• Several improvements to Extract Paths from Segmented Image… command (details)
• Startup prompt now lists all open images (issue #128)
• Added "Apply distinct colors" command (Tag -> Color -> in PathManager)
• Choose Tracing Image → From Open Image..._ has a new option to keep the replaced image open (issue #129)
• Image-based Sholl: Option to specify size of Point ROIS. Thickness of 2D shells now reflects no. of samples per radius
• Scripting: Improved API for saving tables
• Improved tables (details)

Fixed:

• Incorrect statistical summaries under certain conditions (#122)
• Image-based Sholl: Spurious counts under certain conditions (details)
• Incorrect list of available images in Extract Paths from Segmented Image… command (details)

Misc:

• Updated dependencies
• Updated documentation

Full Changelog: SNT-4.1.2...SNT-4.1.3
Compiled artifact (without dependencies): SNT-4.1.3.jar

SNT-4.1.2

Fixed:

• Measure dialog reporting double branch counts (details)
• Transparency of OBJ meshes in Reconstruction Viewer not being set (#113)
• Spurious Z-slice change on Path selection (#115)

Improved:

• New template script: Straightening_Montage.groovy
• Option to toggle visibility of Fiji's Console from within SNT
• Simplify ddaC autotracing demo
• Update dependencies (#116)

Full Changelog: SNT-4.1.1...SNT-4.1.2

SNT-4.1.1

• Improved autotracing operations:

  • Dialog prompt: Simplified and more interactive
  • Autotraced paths are now tagged as such
  • Secondary layer can be used as image input
  • Threshold values of input image (if any) are now taken into account
  • Debug mode option
  • Added examples/demos:
    • ddaC auto-tracing demo (File -> Open Demo Dataset...)
    • Autotracing demo script
  • Bugfix: ROIs being 'lost' when loading images (details)

• Improved Command Palette:

  • New application wide shortcut Ctrl+Shift+P (Cmd+Shift+P on macOS)
  • Improvements and bug fixes, including exclusion of context menu commands

• Misc bug fixes

Full Changelog: SNT-4.1.0...SNT-4.1.1

SNT-4.1.0

New:

• Improvements to automated-tracing routine including root detection by means of an ROI (details)
• New Command: File → Autotrace Segmented Image…
• Loading a skeletonized/binarized image automatically triggers the automated-tracing routine

Full Changelog: SNT-4.0.15...SNT-4.1.0

SNT-4.0.15

New:

• SNTCharts: Convenience commands: 'Close All', 'Merge as Image stack", "Tile All", etc
• Improved Strahler commands (details)

Fixed:

• Fixed: Multiple plot charts could not be saved programmatically

Full Changelog: SNT-4.0.14...SNT-4.0.15

SNT-4.0.14

New:

• Interactive scripts: CommandFinder can now 'record' command calls. This mitigates the issue brought up during the recent I2K2022 workshop while showcasing recordable commands
• Methods for maxima detection in path profiles (details)

Fixed/Improved:

• Improved handling of RGB images
• Updated jupyter notebooksfiji
• Updated dependencies (#106, #107 )

Full Changelog: SNT-4.0.13...SNT-4.0.14

SNT-4.0.13

New:

• Re-written Measurements Prompt

  • Majority of metrics available in the scripting API are now exposed in the dialog
  • Ability to summarize measurements (Mean, SD, Min, Max)
  

• Polar histograms (useful for, e.g., plotting dendrite angles and orientations of receptive fields). Example:
  

Fixed/Improved:

• Override of StartupMacros (details)
• The spurious "Tables" menu is no longer registered in ImageJ's menu bar (scijava/scijava-plot#5)
• Fixed inconsistencies in plot scaling
• Updated dependencies (#99, #100, #101, #102)

Full Changelog: SNT-4.0.12...SNT-4.0.13

SNT-4.0.12

Fixed unresponsive command (details).

SNT-4.0.11

This is a maintenance release. No major features have been implemented.

• Fixed: Show/Hide Selected not working as expected in Reconstruction Viewer
• Fixed: Handling of SWC files with extra "." in their file paths (#97, #98)
• Fixed: Exception after splitting Tree (#89)
• Improved Sholl API details
• Updated dependencies (#92, #93, #94, #95, #96)

Full Changelog: SNT-4.0.9...SNT-4.0.11
Compiled artifact (without dependencies): SNT-4.0.11.jar