macrophage-brain-vasculature / find-points-3d-from-2d / 0.1.0-SNAPSHOT

macrophage-brain-vasculature find 3D points from 2D annotations solution

A solution for finding 3D coordinates from 2D annotations with respect to a target image
Tags
fijiimagej
Citation
tbdtbd
Solution written by
Kyle Harrington
Jan Philipp Albrecht
License of solution
Apache v2

Arguments

--csv_filename
csv filename (default value: PARAMETER_VALUE)
--image_filename
image filename (default value: PARAMETER_VALUE)
--output_filename
output csv filename (default value: PARAMETER_VALUE)

How to run

.. via graphical user interface
If you haven't already, install the album app.
Download ZIP by clicking here, unzip it and execute image/bin/album.
Download ZIP by clicking here, unzip it and execute image/bin/album.bat.
Download ZIP by clicking here, unzip it and execute image/bin/album.
Launch the album app and, if you are launching it for the first time, follow the instructions for installing album on your machine.
You can add this catalog to your collection by pressing the Add catalog button and pasting this URL into the popup window:

https://gitlab.com/album-app/catalogs/capture-knowledge

Load your collection by clicking Load collection and select the catalog named capture-knowledge. On the right, scroll to macrophage-brain-vasculature:find-points-3d-from-2d.
.. via command line
Create an album conda environment and activate it:
conda env create -f https://gitlab.com/album-app/album/-/raw/main/album.yml
conda activate album
You can add this catalog to your collection:
album add-catalog https://gitlab.com/album-app/catalogs/capture-knowledge
album update capture-knowledge
album upgrade capture-knowledge
.. and launch the solution by name:
album install macrophage-brain-vasculature:find-points-3d-from-2d:0.1.0-SNAPSHOT
album run macrophage-brain-vasculature:find-points-3d-from-2d:0.1.0-SNAPSHOT --csv_filename PARAMETER_VALUE, --image_filename PARAMETER_VALUE, --output_filename PARAMETER_VALUE