In Silico Fate Mapping
TODO
Interactive in silico fate mapping from tracking data.
This napari plugin estimates the cell fates from tracking data by building a radial regression model per time point. The user can select an area of interest using a Points
layer; the algorithm will advent the probed coordinates forward (or backward) in time, showing the estimated fate.
Video example below:
Installation¶
TODO: add to pypi
You can install in-silico-fate-mapping
via pip:
pip install in-silico-fate-mapping
To install the latest development version :
pip install git+https://github.com/royerlab/in-silico-fate-mapping.git
IO file format¶
This plugin does not depend on a specific file format, the only requirement is using a Track
layer from napari.
Despite this, we ship a reader and writer interface. It supports .csv
files with the following reader TrackID, t, (z), y, x
, z
is optional.
Such that each tracklet has a unique TrackID
and it's composed of a sequence o time and spatial coordinates.
This is extremely similar to how napari store tracks, more information can be found here.
Divisions are not supported at the moment.
Citing¶
If used please cite:
TBD
Issues¶
If you encounter any problems, please file an issue along with a detailed description.
Version:
- 0.1.0
Last updated:
- 27 February 2023
First released:
- 27 February 2023
License:
- BSD-3-Clause
Supported data:
- Information not submitted
Plugin type:
Open extension:
Save extension:
Save layers:
GitHub activity:
- Stars: 1
- Forks: 0
- Issues + PRs: 1