| 12 | | In this article we propose the Possum volumetric reconstruction framework which provides a selection of 2D to 3D image reconstruction routines allowing one to build 2D to 3D reconstruction workflows tailored to one's specific requirements. |
| | 12 | Techniques based on imaging serial sections of %the |
| | 13 | brain tissue provide insight into brain structure and function. Such |
| | 14 | data requires reconstruction into a volumetric form before comparing |
| | 15 | or combining it with results from three dimensional imaging |
| | 16 | methods. Currently, there |
| | 17 | are no tools for performing such a task in a~streamlined way. |
| 14 | | The main building blocks include reconstruction with or without using external reference and solutions for typical issues encountered during the reconstruction process, such as propagation of the reconstruction errors due to distorted sections. We validate the implementation using synthetic datasets and actual experimental imaging data derived from publicly available resources. We also evaluate efficiency of a subset of the algorithms implemented. |
| | 19 | Here we propose the Possum volumetric reconstruction framework which |
| | 20 | provides a~selection of 2D to 3D image reconstruction routines |
| | 21 | allowing one to build workflows tailored to one's specific |
| | 22 | requirements. The main components include routines for |
| | 23 | reconstruction with or without using external reference and |
| | 24 | solutions for typical issues encountered during the reconstruction |
| | 25 | process, such as propagation of the registration errors due to |
| | 26 | distorted sections. We validate the implementation using synthetic |
| | 27 | datasets and actual experimental imaging data derived from publicly |
| | 28 | available resources. We also evaluate efficiency of a subset of the |
| | 29 | algorithms implemented. |
| 16 | | The Possum volumetric reconstruction framework is distributed under MIT open license and it provides researchers with a possibility of building 2D to 3D reconstruction workflows from existing components, without the need for low-level implementation. |
| 17 | | As a consequence, it also facilitates sharing and data exchange between researchers and laboratories. |
| | 31 | The Possum framework is distributed under MIT license and it provides |
| | 32 | researchers with a possibility of building reconstruction workflows |
| | 33 | from existing components, without the need for low-level |
| | 34 | implementation. As a consequence, it also facilitates sharing and |
| | 35 | data exchange between researchers and laboratories. |
