sarcgraph.sg_tools.SarcGraphTools.Visualization

class SarcGraphTools.Visualization(sg_tools)[source]

Provides tools to visualize the results of post-processing analysis on detected sarcomeres.

Methods

`F`()	Plot recovered deformation gradient.
`F_eigenval_animation`([no_anim])	Visualize the eigenvalues of F over all frames
`J`()	Plot recovered deformation jacobian.
`OOP`()	Plot recovered Orientational Order Parameter.
`contraction`()	Visualize all detected sarcomeres in every frame according to normalized fraction length and save as a gif file.
`dendrogram`([dist_func])	Cluster timeseries and plot a dendrogram that shows clusters.
`normalized_sarcs_length`()	Plot normalized length of all detected sarcomeres vs frame number.
`spatial_graph`()	Visualizes the spatial graph
`timeseries_params`()	Visualize time series parameters.
`tracked_vs_untracked`(file_path[, ...])	Visualize metrics to compare the effect of tracking sarcomeres in a video vs only detecting sarcomeres in each frame without tracking
`zdiscs_and_sarcs`([frame_num])	Visualize and save the plot of segmented zdiscs and detected sarcomeres in the chosen frame

zdiscs_and_sarcs(frame_num=0)[source]

Visualize and save the plot of segmented zdiscs and detected sarcomeres in the chosen frame

contraction()[source]: Visualize all detected sarcomeres in every frame according to normalized fraction length and save as a gif file.

normalized_sarcs_length()[source]: Plot normalized length of all detected sarcomeres vs frame number.

F_eigenval_animation(no_anim=False)[source]: Visualize the eigenvalues of F over all frames

dendrogram(dist_func='dtw')[source]

Cluster timeseries and plot a dendrogram that shows clusters.

Parameters:: dist_func (str, optional, by default "dtw") – Choose between “euclidean” or “dtw”

spatial_graph()[source]: Visualizes the spatial graph

See also

sarcgraph.sg_tools.SarcGraphTools.Analysis.create_spatial_graph()

tracked_vs_untracked(file_path, start_frame=0, stop_frame=inf)[source]

Visualize metrics to compare the effect of tracking sarcomeres in a video vs only detecting sarcomeres in each frame without tracking

Parameters: