entities.trajectory.DSSPManager
entities.trajectory.DSSPManager(entity)DSSP Manager for trajectories
Show secondary structures computed using MDAnalysis.analysis.dssp
Methods
| Name | Description |
|---|---|
| init | Initialize DSSP |
| show_none | Do not show secondary structures |
| show_per_frame | Show secondary structures calculated per frame |
| show_sliding_window_average | Show average secondary structures of a sliding window of frames |
| show_trajectory_average | Show average secondary structures across all frames |
init
entities.trajectory.DSSPManager.init()Initialize DSSP
show_none
entities.trajectory.DSSPManager.show_none()Do not show secondary structures
show_per_frame
entities.trajectory.DSSPManager.show_per_frame()Show secondary structures calculated per frame
show_sliding_window_average
entities.trajectory.DSSPManager.show_sliding_window_average(
window_size=5,
threshold=None,
)Show average secondary structures of a sliding window of frames
Parameters
| Name | Type | Description | Default |
|---|---|---|---|
| window_size | int | Size of the sliding window, default is 5 frames | 5 |
| threshold | float | None | Threshold to compare the mean against [0.0 - 1.0]. When None, no threshold comparison is made | None |
show_trajectory_average
entities.trajectory.DSSPManager.show_trajectory_average(threshold=None)Show average secondary structures across all frames
Parameters
| Name | Type | Description | Default |
|---|---|---|---|
| threshold | float | None | Threshold to compare the mean against [0.0 - 1.0]. When None, no threshold comparison is made | None |