delila-genome 1.0 (tar/gz)

Release notes:

Delila-genome 1.0 is a software system for identification, visualization 
and analysis of protein binding sites in complete genome sequences. 
Binding sites are predicted by scanning genomic sequences with 
information theory-based (or user-defined) weight matrices. 

Parameters for genome scans are entered using a Java-based GUI 
interface and backend scripts in Perl. Multi-processor CPU load-sharing 
minimizes average response times for scans of different chromosomes.  
Individual binding sites are displayed either as high-resolution 
sequence walkers or in low-resolution custom tracks in the UCSC genome 
browser. An HTML document is produced listing binding sites ranked by 
binding site strength or chromosomal location hyperlinked to the UCSC 
custom track, other annotation databases and binding site sequences.   

Post-genome scan tools parse binding site annotations of selected 
chromosome intervals and compare the results of genome scans using 
different weight matrices. Comparisons of multiple genome scans can 
display binding sites that are unique to each scan and identify sites 
with significantly altered binding strengths. 

Note: The system requires the Delila package of individual information
programs which are available from the National Cancer Institute (www.lecb.ncifcrf.gov/~toms/contacts.html).

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