... | ... | @@ -54,13 +54,13 @@ Complete list of Napari label layer shortcuts (From File>Preferences>Shortcuts): |
|
|
|
|
|
# Edit segmentation on several time frames
|
|
|
|
|
|
To correct tracks, :round_pushpin: **press <kbd>t</kbd> to active the tracks editing mode.**.
|
|
|
To correct tracks, :round_pushpin: **press <kbd>t</kbd> to active the tracks editing mode.**. A message should appear to confirm that the track edit mode is active.
|
|
|
|
|
|
:warning: The other shortcuts are not active anymore in this mode, only the shortcuts listed below. To leave this mode and reactive the usual shortcuts, either finish your edit or press <kbd>t</kbd> again.
|
|
|
|
|
|
|
|
|
## Merge two tracks
|
|
|
:round_pushpin: **Press <kbd>t</kbd> to go into track edit mode** (a message should appear when you enter this mode).
|
|
|
_Track edit mode is active_
|
|
|
|
|
|
To link two cells that have not been correctly tracked as one (temporal merge) or that have been wrongly splitted in two in the segmentation in several frames (spatial merge), :round_pushpin: **Click left** on the first cell to merge. **Click right** on the second cell to merge. The two tracks (for temporal merging) or the two cells (for spatial merging) will be merged as one.
|
|
|
|
... | ... | @@ -83,15 +83,32 @@ This will create a new track containing the two merged segmentation as one cell. |
|
|
The track under the click will be splitted in two tracks: a new track will be created from the current frame until the last frame of the initial track. The frames of the initial track previous to the clicked frame will be untouched.
|
|
|
|
|
|
## Manual tracking edition
|
|
|
_Track edit mode is active_
|
|
|
|
|
|
:round_pushpin: **Press <kbd>t</kbd> to go into manual tracking mode** (a message should appear when you enter this mode).
|
|
|
**<kbd>Left-click</kbd> on the cell to track** from the beginning of its track to its end.
|
|
|
:round_pushpin: **<kbd>Control+Left-click</kbd> on the cell to track** from the beginning of its track to its end.
|
|
|
|
|
|
The first <kbd>left-click</kbd> that you do would determine the id of the track to edit (the cell value that you clicked), and the movie will go to the next frame.
|
|
|
Then, for each <kbd>left-click</kbd>, the cell below the cursor will be set to this track id value and the movie will move to the next frame.
|
|
|
|
|
|
**To finish the track editing, <kbd>Control+right-click</kbd>** and a confirmation message will appear. If you reach the end of the movie and do one more <kbd>left-clik</kbd>, the manual tracking mode will also be stopped.
|
|
|
|
|
|
|
|
|
## Label interpolation
|
|
|
_Track edit mode is active_
|
|
|
|
|
|
Option to interpolate the segmentation of a label between two (or more) frames when the segmentation is missing.
|
|
|
|
|
|
:round_pushpin: **<kbd>Alt+Left-click</kbd> on the first cell to interpolate**. Select the last occurence of the cell (label) before the frames with the missing segmentation. Move to the first following frame where the cell is segmented again, and select it (the label of the cell reappearing is most likely not the same as the first label because there was a gap). **<kbd>Alt+Right-click</kbd> on the second cell to interpolate**.
|
|
|
|
|
|

|
|
|
|
|
|
EpiCure will interpolate the segmentation from the left clicked cell to the right clicked cell and link the two tracks. You should obtain a full track, with the label of the first cell that contains the first track, the interpolated cell on the missing frames and the second track.
|
|
|
|
|
|
Note that the interpolated segmentation is drawn only where the initial segmentation is black (background). If other labels are present in the interpolated area, it will not be corrected.
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
---
|
|
|
---
|
|
|
|
... | ... | |