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 2024.2.1
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.