Announcement: Endrov - a general platform for image processing and analysis

classic Classic list List threaded Threaded
1 message Options
mahogny mahogny
Reply | Threaded
Open this post in threaded view
|

Announcement: Endrov - a general platform for image processing and analysis

*****
To join, leave or search the confocal microscopy listserv, go to:
http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy
*****

We are happy to for the first time do a broad announcement of our software
Endrov!

The software was written for some of our projects as ImageJ lacked
functions we needed. Knowing that a plugin would become as large as ImageJ
itself, we decided to instead write a small specialized program. A few
years later it is neither small nor specialized but rather has become a
platform we think can rival it, at least for some tasks. Now we want users
to try it out at large scale and give us all the well-needed bug reports to
make it solid. However we emphasize that for anything but viewing your data
you might still need programming skills to really make use of it. And there
are still missing/incomplete features.

Just a glance at some highlights:
* tight integration of 3d visualization (but 2d is there too)
* fast handling of very large datasets and nD images
* focus on metadata and annotation - far from just image data
* a different workflow more suitable for image processing (which takes some
adjustment to get used to, but a very minor one)
* a graphical programming language (but scripting is possible too)
* undo and redo for all operations
* integration with OMERO, which everyone should be using
* integration with micro-manager, to control the microscope, and later
incorporate things like on-the-fly image analysis
* separated algorithms and GUI, to be able to use it in other programs or
from the terminal on e.g. clusters

The software is documented and can be downloaded from:
http://www.endrov.net

To not flood this mailing list, we have set up a special one for bugs and
questions:
https://lists.sourceforge.net/lists/listinfo/vwb-users

We are aware that the problem has moved from imagej-is-getting-old to
too-many-imagej-replacements. Our future plans are to share as much code
with other projects as possible. We have already scrapped our own file
format in favour of OME-TIFF (with some extensions for our metadata). Next
up is improved integration of OMERO and moving our algorithms into imglib.

Happy testing!
/Johan

--
-----------------------------------------------------------
Johan Henriksson
PhD student, Karolinska Institutet
http://mahogny.areta.org  http://www.endrov.net