Published March 28, 2024 | Version 12.29
Software Open

Docker containers for DELiVR, initial release (inference, version 12.19)

  • 1. Institute for Tissue Engineering and Regenerative Medicine (iTERM), Helmholtz Munich

Description

Initial Release of the docker containers 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 inference container: 

  • Inference container (version 12.29, using code from github: https://github.com/erturklab/delivr_cfos).
  • This container will run the entire preprocessing, cell detection, postprocessing, and visualization pipeline after being started (either via the command line with the "docker run" command, or via the FIJI plugin. Please refer to the handbook accompanying the publication for details. 
  • In addition, it contains the additional files required to build the container, as well as the Dockerfile. 

Files

Files (8.7 GB)

Name Size Download all
md5:8763bff0e5898999840911ab1438e2f0
8.7 GB Download

Additional details

Dates

Available
2024-03-28

Software

Repository URL
https://github.com/erturklab/delivr_cfos
Programming language
Python