OME Users' meeting, Dundee
1st June 2016
What's in a Figure?
Manual Figure Creation
Export of images as TIFFs
Decide on which Z sections or projections
Choose timepoints for movies
Correct channels and rendering settings
Make notes in case you need to repeat!
Import into Illustrator / Photoshop / etc.
Cropping (same region in multiple images)
Align into rows / grids
Add scalebars, labels, ROIs
Important to preserve image quality & integrity
Instruction for authors:
J. Cell Sci
10 posts on image screening (JCB)
How to Create Publication-Quality Figures
Need to know exactly what to export at start
Loss of Metadata:
Loss of Pixel data:
Export as 8-bit TIFF
Resizing images may resample them
No links between Figure and original images
Figure export scripts
OMERO 4.2 (July 2010)
OMERO.figure Design Goals
Keep it fast!
Combine images into figure in OMERO (no export)
Flexible layout with shortcuts for grids
Each panel is a fully editable image viewer
Edits applied to multiple selected images
Exportable as PDF / TIFF
History of a "side project"
Initial Commit 'weblabs'
New 'webfigure' Repo
Beta release in March 2014
1.0.0 - October 2014
1.1.0 - April 2015: Tiffs, Cropping, Pages
1.2.0 - November 2015: Draw shapes
What is OMERO.figure?
OMERO.web app, same as OMERO.webclient
Download, put on
and add to web 'apps'
$ bin/omero config append omero.web.apps '"figure"'
Services used by OMERO.figure
(light-weight MVC library)
- css, icons, js
- Keyboard bindings
- Drag handles etc.
- PDF generation
Labels & Scalebars
Save to OMERO
Export to PDF / TIFF
Links to images in OMERO
Export as PDF / TIFF
Improve ROI support:
Load ROIs from OMERO
Save ROIs back to OMERO
More shapes (freehand, polygon, label)
Improved integration with OMERO.webclient
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