Neuroscience tool to make 3D reconstructions from brain slice images
Stalefish is a tool to analyse gene expression. From your brain slice images you can build 3D
expression surfaces and then convert these into 2D expression maps or save them in GL transmission format (glTF). For more details see the preprint: https://www.biorxiv.org/content/10.1101/2021.07.28.454203v1.
Significant contributions to this software were made by Mackenzie Englund (original concept and Python implementation of polynomial curve fitting) and Stuart Wilson (initial C++ implementation of polynomial fitting and box-based luminance sampling using OpenCV). Bezier curve fitting, slice alignment algorithms, 3D visualization, 3D to 2D digital unwrapping and alignment of maps to a common coordinate alignment were developed by Seb James.
The packages for RHEL 8 and RHEL 7 are in each distribution’s respective Extra Packages for Enterprise Linux (EPEL) repository. The instructions for adding this repository diverge slightly between RHEL 8 and RHEL 7, which is why they’re listed separately below.
The EPEL repository can be added to RHEL 8 with the following command: