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Introduction to volume fusion The Volume Fusion module for Vision4D has been available since 2017. This article explains how it can be used.

Image pre-processing, stitching and volume fusion

Overview Use Volume Fusion to merge images together that can't be merged using the Tile Sorter. Registering the volumes for fusion using landmarks: Add landmarks using markers to match specific pixels in both volumes.

Introduction Volume Fusion was added to Vision4D as a tool to merge multiple image volumes that could not be merged otherwise.

Image transformations and stitching Volume Fusion Volume Fusion Video

Landmark Registration - Fusing the volumes The Volume Fusion window is opened from the Data menu. In the Volume Fusion window, there are two tabs. One is used to define the inputs and outputs, the second is used to define the transformation parameters.

Volumes to be fused need to start as different image sets in the same SIS file The input of Volume Fusion is two image sets in the same SIS file. This means that the volumes to be fused must first be imported as multiple Image Sets.

Some practice is worthwhile. rotating the volume using the usual methods remains possible while transforming the surface and is quite useful to ensure the correct location and orientation of the surface relative to the volume.

The volumes must be of the same bit depth While volume fusion can work with images of different dimensions, the images must be of the same bit depth.

Surface registration - Applying the surface transformation for fusion With the transformation of the surface in either Vision4D or VisionVR, we can copy the transformation parameters to the Volume Fusion.

Landmark registration - Creating landmarks If the images are similar enough, and with enough overlap, it can be relatively easy to identify identical features in both volumes.

Fusing Volumes Volume Fusion is essentially a two-step process. First, we need to establish registration parameters and then we can modify the moving image set according to those parameters so that it can be fused with the base image set.

Merging more than two sets Each time we do a volume fusion we create a new image set. The typical destination for this new set is the same SIS file where the original sets currently reside.

Importing and moving objects in a 3D volume When importing objects created on another image set, as in the case of atlas regions, it is sometimes necessary to move them to match the destination image set.

Multimodal imaging As mentioned above, Volume Fusion works by taking one image set that we define as the Base image set and another that we define as the Moving image set, and transforming the Moving set to match the Base.

The license dictates: What tools you have access to (e.g. tracking, batch analysis, volume fusion) On what machine the software can be used How many users can use the software at any one time Aside from what modules are included, the main distinction in license

It is also useful when the stitching, the volume fusion or additional dataset import are done. Check the file status always before transferring it to the permanent storage unit or before sharing it by upload to any transfer services.

Holes parameter for region growing operations fix: problems with imported Ilastik trainings fix: ML filter operation saves/loads channel selection correctly Import & Data Handling new: support for VGL import improved: support for larger translations in the Volume

rare conditions objects were not clipped in storyboard movie exports Import & Data Handling: Fix: broken Luxendo Big Data Viewer import Fix: better distinction of mosaic and channel-stitching in LaVision OME tiffs New: added GZIp preference switch to the Volume

Interactive Feature Statistics in the Annotation window with Timeline View to sort, analyze and visualize tracks and features of segments along a track over time 3D Volume fusion & Landmark Registration (Scope Fusion) new: ability to run Scope Fusion at subsampled