Re: [Gmod-ajax] ClientConfig Options jbrowse-1.4.0

[Robert B. <rb...@gm...>]

The display of subfeatures is influenced both by the subfeatureScale, 
property, *and* by the feature density (total number of features in the 
track's dataset divided by the length of the reference sequence in bp).

See
 
https://github.com/GMOD/jbrowse/blob/1.4.2-release/js/FeatureTrack.js#L119
 
https://github.com/GMOD/jbrowse/blob/1.4.2-release/js/FeatureTrack.js#L695

In the code, `scale` is the number of pixels per base pair in the 
current zoom level.  So, the comparison (with units) is:

scale (px/bp) >? feature density (features/bp) * subfeatureScale 
(px/feature)

Setting a value of 0 for subfeatureScale will mean that subfeatures will 
always be shown.

Does that help?

Robert Buels
Lead Developer
JBrowse - http://jbrowse.org

On 07/13/2012 10:36 AM, Hernán Bondino wrote:
> Hi Robert,
>
> "histScale" : 0 now works perfect,
>
> With "subfeatureScale" I can make that the subfeatures be shown at
> deeper zooms,
> but not at lower zooms, I mean,
>
> "subfeatureScale" : 300000 shows the subfeatures only in the deepest zoom
>
> but
>
> "subfeatureScale" : 0 makes no difference with the standard zoom level
>
> I think this is related with the size of the feature to show,
> because at some medium levels of zoom, in the same track, the subfeatures
> for blocks of 200 bp are shown but the subfeatures for blocks of 100 bp
> aren't.
>
> Do you have any idea?
>
> Hernán
>