EST Clustering: The Next Generation

Win Hide winhide at sanbi.ac.za
Tue Jul 11 12:29:29 EST 2000


COMPREHENSIVE, ROBUST, TRANSCRIPT CLUSTERING SYSTEM NOW AVAILABLE FOR
DOWNLOAD

Significant improvements have been made to SANBI's stackPACK EST
clustering, transcript reconstruction and variation analysis tools. 

The latest release of the stackPACK system, while using the same
scientific schema as stackPACK 1.0, has been completely re-engineered
over the past year as a focused project to provide a solid and highly
robust system by Electric Genetics, in cooperation with SANBI

We are happy to announce the release and availability of stackPACK v2.0,
initially for the Linux platform with SGI, SUN and Compaq soon to
follow.

You can download stackPACK v2.0 from the following address:
http://www.sanbi.ac.za/CODES/STACKPACK_REQUEST/

As the software is basically entirely revamped, it is necessary to
register again. Electric Genetics are making the full commercial version
of stackPACK freely available to academics.

stackPACK v2.0 differs from the initial academic release in the
following ways:

  - 	 Provides a web-based interface which provides access to the
clustering tools, generates output reports and provides viewing tools
that link consensus sequences, alignments, splice analysis and external
data sources like UniGene to assist the user in highlighting potential
alternate expression forms within their clusters.  
- 	C++ framework to manage applications and schedule processes.
- 	Interacts with a relational database instead of flatfiles, as in the
old system, to store and manage data throughout the clustering pipeline.
- 	The RDB theoretically can be any ODBC compliant database - we use
MySQL internally.
-	Includes a CORBA interface to the data, facilitating integration
between our system and  external systems.

Electric Genetics will answer your technical support questions via
email:
support at egenetics.com

Win Hide
Director
SANBI


We have also created a mailing and discussion list,
stackers at sanbi.ac.za,  for clustering and transcript reconstruction
discussion (see below). The list is aimed at those researchers who are
attempting to analyse expression products. Receipt of this email does
not mean that you are on the stackers mailing list.

Mailing List details:

Stackers can be subscribed and unsubscribed at: 
http://fling.sanbi.ac.za/mailman/listinfo/stackers








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