[Genome] CpG Island application

[David Nix]

Hello Heather and UCSC folks,

I was wondering if I could obtain the program you use to generate the CpG
island tracks?  We would like to run it on the latest release of Zebrafish,
zv7. It would be great to have this track added to the zv7 db.

The application is " a modification of a program developed by G. Miklem and
L. Hillier."

I came across Heather's name in a thread below.  We are a non profit.

-cheers, David


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[Genome] Question about CpG Islands
Heather Trumbower heather at soe.ucsc.edu
Fri Nov 7 14:32:02 PST 2003

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Razi:

We use the cpglh program from Washington University (St. Louis) Genome
Sequencing Center.  The original author was Gos Miklem from the Sanger
Center.   The version we use has been modified by LaDeana Hillier at
WUGSC.  If you are a non-profit, we could send you a copy of the source.
cpglh requires hardmasked (Ns) fa files for input.

Heather Trumbower
UCSC Genome Bioinformatics Group


> Hi
> I was wondering what program you use for detecting CpG islands and what
> are the parameters used?
> Thanks
> Razi

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