New Features and Enhancements:
- Added support for new AMD drivers
- Additional Clean-Up functionality added to identify issues with varicosities
- Decreased the time requires to detect puncta around the soma
Neurolucida 360 Version History
Neurolucida 360 Version 2024.2.2
Released December 2024
Licensing Update
Update to offline software licensing. Neurolucida 360 software requires reactivation on systems that do not have access to the internet. Instructions for offline software activation are included in the Neurolucida 360 user guide.
New Features and Enhancements
- Improvements to the vessel tracing options in the 2D window
- Automove will now reposition focus when Continuous tracing is being used
- Color channel selection in puncta setup will begin at number 1
- Improvements to synchronization of contours delineated in 2D and 3D
- Image file paths are displayed in the Image Organizer
- During a movie, you can now change image-display settings for image slice and partial projections
- New ability to display the 3D scale bar while recording a Movie
- Other improvements and updates to the Movie mode interface have been implemented
Neurolucida 360 Version 2024.2.1
Released September 2024
New Features and Enhancements
- New Puncta-detection user interface improves and expands capabilities for specifying puncta detection settings:
- Detect puncta based on proximity to other structures, such as trees, spines, and varicosities using rule sets
- Employ powerful And/Or criteria in your rule sets to find specific puncta easily
- Save your settings and reuse your puncta-detection criteria for multiple images, including in the batch pipeline for processing entire directories of image data
- Measure Intensity export will now report the centroid coordinate of any puncta
- You can now enable or disable the detection of spines and varicosities in the same location
- New ability to detect somas in the same location in different color channels
- The typical process width setting is now available in the automatic tracing setup
- New image filters added to the batch process pipeline:
- ExM image filter includes three model options to use to optimize modeling of your expansion-microscopy images
- Tone Mapping image filter to reveal details in both bright and dim regions of your image
- The 3D Environment has an added option to eliminate the display of edge artifacts at the surface of 3D volumes
- Automatic stitching of overlapping fields of view in the Montage tool is now available to optimize the visual information of compiled image montages
- Improvements to the image support in the Measure Intensity tool
- Image support for the .czi format has been improved
- Slide scans from MBF Bioscience acquisition software can now be compiled
- Improvements to the movie creation tool:
- You can now generate movies at high resolution for large data sets
- Use the image slice and partial projection views during movies to showcase important information
- Simple drag and drop to open .xml movie files
Neurolucida 360 Version 2024
Released January 2024.1.1
New Features and Enhancements
- Enhanced options for surface display of traced objects in the 3D environment, including the option to include a legend, change colors, and adjust transparency
- New contour-type legend is available for display in the 3D window
- You can now exclude puncta from detection in locations with existing puncta
- After applying image filters using the Batch Pipeline, you can now begin tracing right away
- Added the ability to save an image crop in .tif format
- The Image Scaling dialog box that appears when opening images now has updated, more helpful information
SPARC Users
- A term import and search feature was added to the tree
Neurolucida 360 Version 2023.1.1
Released August 2023
New Features and Enhancements:
- New Ultra package adds the ability to reconstruct vessels
- New image filters added to the Batch Pipeline: Image Sharpening & Background Subtraction
- New image filter dropdown menu on the Image ribbon
- Added support for using 12-bit images in the Golgi filter
- Improved & expanded image support, including .vsi support
- New Surface capabilities including by branch order, class and diameter
- New Measure Intensity feature to collect intensity data of 3D structures
- New Detect orientation feature to model the orientation vector of fibers
- Spine Classification added to the batch tracing options
- Improvements to automatic tracing setup in subvolume
- Improvements to puncta detection messages
- Save 3D reconstruction settings for the Batch Pipeline with the icon now located in the top 3D button tool panel
- Improvements to multi-marker selection and editing
- Compression and .tif save now supported for Crop tool
Neurolucida 360 Version 2022.1.1
Released November 2022
New Features and Enhancements:
- New Batch Pipeline enables easy-to-use batch processing for image filtering and detection of neuronal structures
- New Pipelines ribbon now houses features previously located in the Automatic section of the Trace Ribbon
- Improved & expanded image support
- New automatic, smart image-optimization preference for low-signal images available
- Improvements to puncta detections, including recognition of manually traced soma for proximity-based
puncta detection. - New display adjustment for visualizing varicosities
- The subvolume tool is now restricted by the bounds of the image
- In the Cell detection workflow, the image source is automatically updated based on the image modality
selected - Image montage can now assemble images of varying x/y sizes
SPARC Users:
- SPARC vocabulary term lists displayed as ontological trees
- New Import 3D Model tool for displaying generic SPARC organ scaffolds in the 3D environment
- Generate parametric models of neural tree tracings
- New Reduce points slider makes it even easier to minimize the number of points used in tree reconstructions
Neurolucida 360 Version 2021.1.1
Released March 2021
New Features and Enhancements:
- Added support for automatic z-alignment and using image names in the Image Montage tool
- Improved puncta detection
- Improved speed when tree segments are classified
- Added ability to clip tracings on slices
- Updated the Partition Contour window
- Added more options for selecting markers, contours, or vessels with the new Freehand Selection tools
- Updated tooltips that display when hovering on buttons and tools
- Tracing with partial projection will automove the image through z
- Updated the Illumination Correction tool
- Updated how to access .blc files
- The default image-save format is now .xml
- Improved file support for the channel panel
- Improved merge function for puncta editing
SPARC Users:
- New Import 3D model tool to import and visualize generic organ scaffolds right in the 3D environment
- Users can now keep the original color when linking to SciCrunch database
- Added a LinkTerms exit button
- Added ability to name sets with the SciCrunch term-list
- Associate Link Terms to cell body contours
- Increased the number of results from SciCrunch term-list searches
- Associated terms are shown in the link terms window
- Users can now load multiple term-lists into the term-verification window
- New muscle fiber segmentation tool
Neurolucida 360 Version 2020.3.3
Released November 2020
Neurolucida 360 Version 2020.3.2
Released November 2020
New Features and Enhancements:
- Added ability to select all dendrites, apical dendrites or axons in 3D environment
- Reporting the thickness of a specific point in the 3D environment
- Added progress bar for Clean-Up
- Added support for additional OME-TIFF format
Neurolucida 360 Version 2020.3.1
Released October 2020
New Features and Enhancements:
- Images and data files load noticeably faster than in previous releases
- Neurolucida 360 software handles hundreds of thousands of data points simultaneously
- Image adjustments are immediately displayed in both the 2D and 3D windows—without clicking any buttons
- Multiple options to indicate how you want Neurolucida 360 software to handle and display your images
- Drag and drop file opening is easier and more powerful with the new Image Opener window
- Open all images in container files such as Leica ,lif and Zeiss ,czi formats
- Choose to display in a grid, stack images, or display on top of each other without stacking
- Puncta detection in the 3D environment replaces synapse detection present in previous releases
- Puncta detection tool includes the option to use powerful new machine learning technology for accurate puncta detection
- Color channel selection in the 3D environment via a new Channel panel enables you to select one or more color channels to view, hide, and associate data elements within your images
- You can now associate traced structures with a specific color channel
- New subvolume function in the 3D environment enables you to easily and systematically focus on portions of images/image stacks
- Easier software authorization: Neurolucida 360 software autofills the online Authorization Request Form with information about your computer system
- You can now classify segments of trees in tree-editing mode to facilitate later analysis using Neurolucida Explorer software
- Research Resource Identifier (RRID) recorded in every .xml data file
- Putative synapse markers work on all axon/dendrite pairs
Neurolucida 360 Version 2020.1.1
Released December 2019
New Features and Enhancements:
- Image montage includes new method for 2D image alignment
- Added ‘Select everything of this contour type’ option to the right-click menu
- Add help access, improved statuses, icon, and login to Blackfynn access window
- SPARC Vocabulary Services now launch when a data file or image file is opened, rather than when the software is started
- Large Volume Reconstruction mode enhanced to adjust status warning
Neurolucida 360 Version 2019.1.3
Released October 2019
New Features and Enhancements:
- SPARC vocabulary services: Can use symbols in Subject ID Field
- Added ‘select everything of this contour type’ option to the right-click menu
Neurolucida 360 Version 2019.1.2
Released July 2019
Detection, Tracing, and Classification:
- Batch tracing is CZI supported.
- Input text box to filtering slider under parameters added to cell detection workflow.
Misc:
- Batch converter added (DAT to XML) — to access, type “convert” in the quick launch box.
Neurolucida 360 Version 2019.1.1
Released January 2019
Detection, Tracing, and Classification:
- The end point of a trace changes colors when targeted when using user-guiding tracing system.
- Automatic cell detection workflow added to speed up detection process.
Editing:
- Nodes and points now distinguishable by color.
- Added button to reset all selected contours/shells back to line mode display.
Scene and Display:
- Completely redesigned preference panels with a handy search functionality.
- Scalebar color and playment controls
- New EMF detail slider.
Misc:
- Display warning message when user attempts to change sections while moving to the next section.
- Support for Huron jpeg files, definition for Huron file extension.
- Support for Huron TIFF images.
- LVR added to quick launch.
- 3D contour drawing added.
- 3D marker placement added.
Neurolucida 360 Version 2018.1.1
Released May 2018
Detection, Tracing, and Classification:
- Display all trees as centerline, while the tree being traced is displayed with the actual thickness.
- Voxels in a single location cannot be identified as both a varicosity and a spine.
- Varicosity detection is restricted to the varicosities whole center is located at least one radius away from the start or the end of a branch.
- Improved automatic tracing in image volumes with numerous Z planes.
- Reconstruct from a very large image volume and define subvolumes and trace in 3D.
Scene and Display:
- Movie production has been redesigned and expanded functionality.
Misc:
- Apply filters (Golgi, in vivo, closing, projection) to multiple images without opening them.
- Function toggles between zooming and focusing depending on cursor location.
Neurolucida 360 Version 2017.01.3
Released October 2017
Detection, Tracing, and Classification:
- Spine detection range increased from 15 to 20 micrometers.
- Spine detector can use voxels past the end of dendrite for interactive detection.
- Surface area and other spine metrics can be calculated from outside the spine detector.
Neurolucida 360 Version 2017.01.2
Released September 2017
Detection, Tracing, and Classification:
- In the trace ribbon, click Automatic>Batch Trace to generate the automatic reconstruction of somas, trees, and spines over multiple images.
Misc:
- Marker deletion improved, more stable, faster with marker summary updated.
- Contour functionality in 3D environment improved.
Neurolucida 360 Version 2017.01.1
Released April 2017
Detection, Tracing, and Classification:
- Varicosities detection added (available with Neurolucida 360 Studio).
- “Clear last” soma button added.
- Synapse detection now available for axons, in addition to dendrites and apical dendrites.
- Spine backbone length is reported by default.
Editing:
- Cleanup tool added to identify and remove tree fragments quickly after automatic tracing.
- Marker sizing added to Edit Markers panel. Similar to 2D sizing (pixels, microns. or intrinsic).
Scene and Display:
- 3D scale bar added.
- 360 window renamed 3D environment.
- Redesigned user interface with new icons.
- When selecting an option and then selecting a different option, the display is updated.
- Completely revamped user interface: ribbon bars replaced toolbars and menus.
- Redesigned marker toolbar.
Misc:
- Open data file in Neurolucida Explorer from the 3D environment with one click.
- Objects can be grouped for analysis in Neurolucida Explorer.
- Added option to save scaling information with image file and convert to .jpx format.
- New version notification window displayed when opening program.
- Apotome CZI, ND2, Calibar ID scanner, Bacus, Janelia, VSI, LSM files>4GB, tiled LSM, and multi channeled tiled LSM now supported.
- Support for 4K monitors and Windows 10.
- Support for saving and opening data files from Biolucida servers.
- Improved handling of very large images.
- An alert is displayed when the dongle is not plugged in.
- Context-sensitive help now available for users without internet access.