load_tracks

Functions

tracks_from_csv(→ motile_plugin.core.Tracks)

Assumes a csv similar to that created from "export tracks to csv" with columns:

Module Contents

load_tracks.tracks_from_csv(csvfile: str, segmentation: numpy.ndarray | None = None) → motile_plugin.core.Tracks

Assumes a csv similar to that created from “export tracks to csv” with columns:

t,[z],y,x,id,parent_id,[seg_id]

Cells without a parent_id will have an empty string or a -1 for the parent_id.

Args:

csvfile (str):

path to the csv to load

segmentation (np.ndarray | None, optional):

An optional accompanying segmentation. If provided, assumes that the seg_id column in the csv file exists and corresponds to the label ids in the segmentation array

Returns:

Tracks: a tracks object ready to be visualized with

TracksViewer.view_external_tracks