The goal of cecelia is to simplify image analysis for immunologists
and integrate static and live cell imaging with flow cytometry data. The
package primarily builds upon napari and
shiny. Our aim was to combine shiny’s
graph plotting engine with napari’s image display.
This package is pre-alpha
Software dependencies will be installed during the installation
processing of the R-package. The framework has primarily been tested on
an old MacOS 12.7.6 (with HPC access) and new M2 14.6.1. To install the
software on Windows PCs you must install the
Docker version as
shiny requires a UNIX system. For cell segmentation and deep learning
denoising we recommend a GPU that is recognised by
torch.
See
read-the-docs
for installation and tutorials. Installation of the R-package with all
shiny and python dependencies should require less than 1 h. The Docker
based installation depends on the user’s bandwidth but typically
requires less than 10 min.