CloudReg is a cloud-enabled pipeline for scalable registration, originally built for mouse light-sheet microscopy, but now with functionality to support many different volumetric registration challenges in the cloud.

• Data management
• Preprocessing
• Registration
• Visualization

Portal for managing data and initiating pipeline

Pipeline to run

1. Artifact correction
2. Tile stitching
3. Neuroglancer volume creation
4. Downsample

GPU-accelerated registration pipeline using LDDMM implemented by ardent providing

1. Registration of volumes to
   1. Allen CCFv3 2017
   2. Allen Mouse Brain Reference Atlas (ARA)
   3. Other custom supplied targets
2. Multiscale registration
3. Contrast transforms
4. Invertible transformation matrix smoothly upscaled to higher resolution

Portal running Neuroglancer to

1. View data in native or Allen Mouse Common Coordinate Framework (CCF) space
2. View data overlaid with segmentations and lables from different atlases or other data/channels co-registered to CCF
3. View data overlaid with meshes of atlas segmentations