[Genome] Genome graph window size

[Hiram Clawson]

Good Morning Robert:

If your data can be calculated to a consistent window size,
say one data point for every 100bp, you can use the
wiggle format to view the data in the genome browser:
http://genome.ucsc.edu/goldenPath/help/wiggle.html

The genome graphs are whole genome viewpoints and wouldn't
be able to show your data detail below a couple 100 thousand
bases.  Unless you view them in the genome browser, where
you could instead view them as wiggle data plots.

Wiggle data points are bar graphs at the specified
locations with the bars of size "span".  (span must
be consistent)  Whereas, the genome graph data
points are points on a line graph.  They are different
types of graphs.  The wiggle data can be fudged into
looking like a line graph by setting the graph
options to "points" (actually the lines of the tops
of the bars) and set smoothing on to smear those little
line segments into a continuous looking line.

--Hiram

Robert Darnell wrote:
> Hi:
> 
> I'm a molecular biologist (so have mercy please) interested in trying  
> to graph BED files uploaded into Genome Graphs, but to have the data  
> plotted in a narrower window than 10,000bp; even 1,000 bp would be an  
> improvement I think for our data, or, optimally, 100bp.  Is this  
> impossible because of computation time, or feasible?
> 
> Thanks,
> 
> Bob
> _________________________________
> Robert B. Darnell
> The Rockefeller University
> 
> 
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