Good Morning Sean:
You have specified a "span" of 50 but you are specifying
data values at each base. If you want span of 50, you should
only specify a value at every 50th base. Please note the
discussion of the use of span in the instructions:
http://genome.ucsc.edu/goldenPath/help/wiggle.html
Data values will not graph properly when they overlap.
--Hiram
Sean Schneider wrote:
> Hi,
> I'm trying to create custom wiggle tracks that show a score for each
> individual nucleotide. I've attached an example of a track I've made.
> When I upload it to the browser and go to the "base" level view to see
> the score for each individual nucleotide it looks like the scores are
> smoothed in some way. In the genome browser it shows a relatively flat
> line with no values at zero but when I check those same bases in the WIG
> file with a text viewer I see that many of the bases have a value of
> zero which seems to be "smoothed out" in the genome browser.
>
> My understanding is that the genome browser by default does not smooth.
> As you can see in the sample track I included I even set
> smoothingWindow=OFF to try and solve the problem. Can you tell me where
> I have gone wrong here?
>
> Thanks,
> Sean
>
>
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