[Genome] Ask for help about .wib file

[Rachel Harte]

Hello Zhengpeng Wu,

There are two ways that you can unpack the .wib files. Firstly, if you are
just looking at small regions of the genome, you can use the Table
Browser. This is reachable using the "Tables" link on the top blue bar of
the Genome Browser web site. There you can select the genome and track of
interest - May 2004 for hg17, "ENCODE Chromosome, Chromatin and DNA
Structure" for the group and "BU ORChID" for the track. Select the table
and then select "data points" as the output. The output is
limited to 100,000 so you may not be able to get data for the whole genome
in one query.

Instead, you can use a program developed by one our engineers. To do
this you will need to download the Genome Browser source code which is
free for academic, non-profit and personal use, see this link:

http://genome.ucsc.edu/FAQ/FAQlicense#license3

The program is called hgWiggle. More information about installing it is
here in this answer to a previous mailing list question:

http://www.soe.ucsc.edu/pipermail/genome/2004-August/005446.html

There is also more information on the wiggle file format here:

http://genome-test.cse.ucsc.edu/~hiram/wiggleFAQ.html

I hope that this helps you. Please let us know if you have further
questions.

Rachel

Rachel Harte
UCSC Genome Bioinformatics Group
http://genome.ucsc.edu


On Thu, 10 May 2007, Wu Zhengpeng wrote:

> Hi All,
>
> I want to use the values of 'encodeBu_ORChID1.txt', but I have no idea about how to read the binary file 'encodeBu_ORChID1.wib'.
> Is there some tools to extract the values stored in .wib files?
> Thanks a lot!
>
> PhD Candidate, Zhengpeng Wu
>
> Department of Automation
> Institute of Bioinformatics
> MOE Key laboratory of Bioinformatics
> Tsinghua University
> Beijing, 100084
> China