Array Software?

Simon Andrews simon.andrews at bbsrc.ac.uk
Thu Aug 2 02:51:36 EST 2001

Deano wrote:
> Does anyone have experience with the different array software.  We are
> looking at Rosetta Resolver and Incyte's software.  Are there others
> that are just as good for far less?

It depends what you want to do!  Resolver is a huge piece of kit, which
seems to do everything from spot detection, to analysis, to providing a
back-end database.  If you really need everything it offers then it's
great, but you may well be paying for lots of features you don't need.  

It may be better to think about the different areas of analysis
separately, for instance we use Imagene for spot detection, because it's
good at that - but doesn't really do much more.  Since our analysis of
the quantitated data is fairly simple some people just use excel, and we
also have some simple analysis and visualisation software written
in-house.  If you need advanced analysis all set up and ready to go,
then a lot of people seem to be going for GeneSpring.  If you mainly
want to do cluster analysis, then there are cluster and treeview (for
free!) from Michael Eisen's lab.

I think the main point is to think about exactly what you need your
software to do.  Only pay for the features you need, and then
concentrate on finding the best package for what you want to do.  People
seem to be under the misunderstanding that you have to pay through the
nose for microarray software, and yet having bought these packages they
only use the most rudimentary analyses within them.



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