DELiVR supporting files (training weights, additional components for inference docker container)

Initial Release of the supporting data for the DELiVR cleared-brain analysis pipeline, as described in our 2024 publication: Virtual reality-empowered deep-learning analysis of brain cells Kaltenecker, Al-Maskari, Negwer, et al., Nature Methods 2024 https://doi.org/10.1038/s41592-024-02245-2 This repository contains the following datasets: Training weights for microglia inference Training weights for c-fos inference (as used in the paper) The copy of Terastitcher that we used to build the inference container The copy of mBrainAligner that we used to build the inference container The Dockerfile that we used to build the inference container The Ilastik version that we used to build the inference container Source code for TeraStitcher: https://github.com/abria/TeraStitcher Source code for mBrainaligner: https://github.com/Vaa3D/vaa3d_tools/tree/master/hackathon/mBrainAligner Download for this specific version of the Ilastik binaries: https://files.ilastik.org/ilastik-1.4.0b8-Linux.tar.bz2