Using European UCSC server in Gviz
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krijgerp • 0
@krijgerp-7726
Last seen 6.2 years ago
Netherlands

Dear all,
In rtracklayer I can use the European UCSC server using the url parameter:

session <- browserSession("UCSC",url="http://genome-euro.ucsc.edu/cgi-bin/")

However in Gviz, I am unable to set this parameter. Any suggestions would be appreciated.

Peter

Gviz UCSC • 1.1k views
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@florianhahnenovartiscom-3784
Last seen 2.9 years ago
Switzerland

In the most recent devel version of the Gviz package one can control the url to be used in browserSession() call though the Gviz.ucscUrl option. This should set it to the European one"

options(Gviz.ucscUrl="http://genome-euro.ucsc.edu/cgi-bin/")

Can't test right now since the rtracklayer package seems to be broken. Will update once fixed.

Florian

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