scientific image database capable progs

Gecklord · Apprentice Joined: 17 Mar 2004 Posts: 174

Hey!

I'am working with Olympus analySIS (iTEM) and LSM (Zeiss) Software for fluorescent light microscopy and transmission electron microscopy.
Are there programs which can replace these progs above for linux, since I'd like to stick to linux at home!

Thanks in advance!

thestick · Guru Joined: 07 Apr 2006 Posts: 531 Location: /dev/urandom

had any luck with wine?

Aquiles · Posted: Sat Sep 06, 2008 7:26 pm Post subject:

And what about just virtualizing Windows with VirtualBox or the like?
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Aquiles

machinelou · Apprentice Joined: 05 Apr 2003 Posts: 267

Could you describe your specific needs so those of us that aren't familiar with those particular programs might be able to suggest linux-ware that might be able to do the same thing?

Gecklord · Apprentice Joined: 17 Mar 2004 Posts: 174

The LSM viewer (Zeiss) works with wine but it can't load databases... I am still trying to emerge BioImageXD to test it on this purpose.
The Olympus software won't run with wine because of the tricky security protection which is on an USB stick.

iTEM is basically a software for taking pictures (tiff) with an electron microscope and administer them within a database. A program with which I can open the database (.apl, .tnb, .mtb) an view the tiff files with the preused (iTEM) brightness and contrast would be quite enough for my needs.

Gecklord · Apprentice Joined: 17 Mar 2004 Posts: 174

A little update:

I've tested BioImageXD - with wine admittedly (trying to install it nativeley borked every time) and it might become an alternaitve for LSM Image Browser (Zeiss) but it still lacks usability!

I am still looking for software concerning my image database needs.

slackline · Posted: Tue Sep 09, 2008 10:12 am Post subject:

I\'ve never had any need to use the software you mention, and I doubt many others have either.

Virtually any database will be capable of \"storing\" images (there is debate as to whether they should be stored within the database, or whether the database should contain details of the files location).

So in order to aid others who may have suggestions, could you elaborate on the unique features in Olympus analySIS (iTEM) and LSM (Zeiss) that you wish to have at your disposal under GNU/Linux?

Do they have built in image manipulation/viewing functions?

Is there a specific work-flow that ties in with the software for the microscopes?

The more information the better.

slack
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"Science is what we understand well enough to explain to a computer. Art is everything else we do." - Donald Knuth

Gecklord · Apprentice Joined: 17 Mar 2004 Posts: 174

As I've mentioned above, BioImageXD will become a quite good alternative for LSM but it is not yet!

iTEM can manipulate AND analyse them in term of for example intracellular gold or other immunomarked tracers...
What could help in the first place would be a program, which shows tiff's with the preused brightness and contrast...