Additional tools¶
Merge two datasets¶
: Used to merge two experiments.
Both experiments have to include identical channel and metadata information!
Multichannel demo-/kymographs¶
- : Create multicolor demo- or kymographs by combining up to three individual channels in one image.
Create a demo-/kymograph and save it as a Matlab
fig
-file.Create a demo-/kymograph from the same cells for a different channel and save it as a Matlab
fig
-file.(Repeat for a 3rd channel if appropriate)
Call Tools –> Create multichannel demo-/kymograph and select the
fig
-files and colors for the individual channels.
The combined demo- or kymograph might look nicer, if the colormap of the individual demo- or kymographs is adjusted. This needs to be done for each demo- or kymograph separately.
Export annotated images¶
png
, jpeg
or eps
file (sequence).
Creates a new figure and copies all cells (+overlays) from the segmentation view to it. Afterwards the figure content can be modified.
Export annotated movie¶
png
, jpeg
or eps
) or movie file (avi
and mp4
). Time metadata can be added as label of customizable fontsize and the framerate and movie quality can be set.
Custom Matlab scripts¶
The cell/stalk segmentation data can be accessed in the following way for customized processing.
Run
BacStalk_data = getUIData(gcf);
to retrieve the underlying data and
setUIData(gcf, BacStalk_data);
to apply any changes and make them visible in the GUI.
The segmentation data is stored in the structure
BacStalk_data.frames
A detailled description of the raw data Matlab structures is shown in the following figure. The PDF-version can be downloaded here.