Changes
- Allow users to pan the camera when localizing electrodes
Bug fixes
- Fixed
NifTi orientation issues and use sform
- Fixed localization issue when
NifTi transform matrix has determinant not equally to 1
- Fixed volume shader, resolved shift issues when panning the camera
Changes
- Surface
sync from voxels now clamp the surface nodes
- Added
Voxel Display controller to toggle volume display modes
- Changed shortcut
l from Voxel Type to Voxel Display
- Volume
fragmentShader uses non-linear function to calculate fragment colors combined with face normal; this will create smoother results
-
DataCube2 geometry uses ConvexHull instead of box/sphere to improve the performance
-
DataCube2 are no longer hidden when sync from voxels is on: users can use shortcuts l and k to easily control the visibility.
-
download_template_subject can download other templates such as fsaverage, cvs_avg35, bert.
Bug fixes
- Fixed a volume rendering issue where ray-marching directions are not calculated correctly
- Fixed color not set correctly when changing
Voxel Labels while surface colors are sync from voxels
This version mainly works on the electrode localization. Most changes occur in the JavaScript engine.
Changes
- Allows electrodes to be reset
- Displays electrode labels along with the electrodes
- Allows resizing electrode size on the fly
- Allows resizing the electrode labels
- Localization module has been integrated into
RAVE
- Added line mesh to mark the distance of the electrode deviating from its original position. The line color changes with the distance value.
Improvements
- Improved localization precision
- Auto-adjusting electrodes now respects the topology
- Electrodes in the localization mode now have
LocElectrode class
- Volume rendering and ray-casters now respects the transform matrices
Changes
- Electrode localization now has a
shiny application
Changes
- Supported video content to display auditory visual stimuli along the response
- Default to closing the
default and volume side folders
Improvements
- Fixed electrode localization interpolation issue
- Proper dispose the localized electrodes
- Fixed screenshot and video recording functions
- Renamed recording button to
Chrome-specific
Changes
- Finally, electrode localization is added!
- Added
TextTexture in the internal code to display text Sprite easily
- Can download electrodes as
csv
Changes
- More efficient volume rendering with transparency
- Added shader functions to surface instances, allowing color rendering from volume, electrodes, or vertices (major change)
- Added color-map generator for surface and volume data
- Added method to generate data cube (volume) from
MNI305 coordinates
- Optimized loading procedure
- Removed
crayon, base64enc, htmltools, pryr from dependence
Improvements
- Bumped
threejs version to v131dev
- Fixed surface transparency losing fragments issue
- Added loaders to shiny applications to avoid performance issues on old computers
- Fixed electrodes not selected on mouse click-down (on
Firefox)
Changes
- Added backend engine for volume rendering to show atlas files
- Standalone viewers now use native system tools for
Mac and Linux (On Windows, it still needs R to be installed)
Improvements
- Allows super slow play speed to show animations in millisecond level
- Bumped
threejs to a newer version and fixed compatibility issues
- Animation time range is more reasonable
Changes
- Screenshot now downloads
pdf format
Improvements
- Fixed
freesurferformats face index starting from 1 instead of 0
Changes
- Now displays
MNI305 coordinates instead of tkRAS coordinates
- Removed
reticulate and related functions to support native R functions
Improvements
- Fixed
MNI305 calculation issues
- Internally calculates anterior commissure
Changes
- Implemented
view_ct_t1 to view CT aligned to T1 images
- Updated document on how to generate
FreeSurfer brain
- Removed dependency to
nibabel and use native R packages
- Re-designed legends, added options to show, hide display information
- Added screenshot to download as image
Improvements
- Added hints for keyboard shortcuts
Changes
- Import
FreeSurfer and SUMA files sulc
- Control element update
- Added
brain_proxy to control in shiny element
- Separated display and threshold data
-
FreeMesh material can be switched between MeshPhongMaterial and MeshLambertMaterial
Improvements
- UI will blur focus when clicking on canvas
- Allow customizing widgets
background, cex (font magnification), timestamp (display time)
- Allow
controllers (list) to override control UI
- Added preset
syncviewers (threejs_brain(control_presets = ...)) to synchronize multiple viewers in shiny environment
Changes
- Implemented a new mesh type - volume rendering using ray marching
- Added alternative methods to read
.nii files, nibabel is now optional
- Customized color palettes and value range for better visualizations with outliers
- Only requires
T1.mgz or brainmask of brain.finalsurf is not found. This allows users only run FreeSurfer to the first stage, which only takes around 8 to 10 minutes instead of 6 hours.
- Fully compatible with
htmlwidgets in shiny mode. When calling threejsBrainOutput under shiny::renderUI, the DOM element might get reset by shiny, causing a new 3D viewer created. This might consume more resource, causing memory leaks and even conflict context renderings. Also event listeners couldn’t reset correctly. A cache is created and now is reusing the canvas.
Improvements
- More flexible directory requirement
- Added dispose function to canvas so that memory gets cleared correctly
- Renderer optimization and memory optimization
Bug Fixes
- Fixed keyboard listeners locking the keys
- Fixed huge memory leaks due to
threejs not garbage collecting geometries and textures
Changes
- File structure change: now directly read in from
FreeSurfer folder
- Added readers for
.mgz, .m3z files
- Added coordinate system to align volume with surface data
- Implemented side-viewers, added three side cameras at XYZ axis
- Can now read, export electrodes as csv file
- Re-write brain generating function
- Can display/switch multiple value types
- Added transparency to surfaces
- Implemented experimental electrode localization
- Automatically determine color type (continuous or discrete) and value range
Improvements
- Shortcuts available at here
- Optimized electrode value settings
Changes
- Re-draw canvas on a 2D context to make customized overlay directly on canvas.
- Implemented continuous and discrete legends to replace D3.
- Added support to set main camera position and initial zoom level.
- Added 3D scatter plot and examples.
- Use hybrid render mode when animation not required to save battery usage.
- Improved color palette calculation.
- Support customized title.
Improvements
- Support customized datapath when saving widgets.
- Added instructions on how to embed widgets into websites without R.
- Implemented three types of geometries: plane, sphere and free. A free geometry takes arbitrary geometry vertices and faces to form a 3D mesh object.
- Added animation to sphere object.
- Replaced old JavaScript with npx driven modules.
- Implemented D3 side-widget
- Initial private beta release!