Re: [Gmod-ajax] Graphs

[Ian H. <ih...@be...>]

Hi David,

For #1 do you mean the wig file takes a long time to process, or the resulting image file takes a ling time to load? If the former, yes there is a binary format (BigWig) that could be explored.

For #2, the jbrowse client can display any (appropriately processed) image, so it's possible in theory. Our strategy is to develop general software components so that you can write programs on the server yourself to do this. There is, for example, a Perl module that allows you to draw arbitrary graphics primitives onto jbrowse tracks. The particular use case you mentioned (multiple variates on the same plot, using color) is quite a common request and will probably be bundled with jbrowse eventually, but not yet. In the meantime if you are interested in the roll-your-own approach, check out the ImageTrack perl module in the jbrowse source tree. I can send you more info on this if you like.

#3 is definitely on our to-do list, near the top.

Best wishes
Ian 

On Jul 2, 2010, at 7:51 AM, David Breimann <dav...@gm...> wrote:

> Hello,
> 
> I have calculate different scores for each nucleotide in the genome (each score is just a list of numbers which length is the length of the genome). I added a wig header to each score file (fixed step, start = 1, step = 1), and I successfully added such graphs to my JBrowse using wig-to-json.pl.
> I have a few questions:
> 
> 1. Loading these wig file take a long of time. I understand this are heavy graphs, but perhaps there's a better way to present such data other than wig? I guess not, but wonder anyhow.
> 
> 2. I would like to display a couple of graphs on the same track (different colors). How can this be done? Preferably, the graphs should not be filled (just line plots).
> 
> 3. I would like to display an axis (ruler) at the edge of the view to get an idea about the values.
> 
> Is this possible in JBrowse?
> 
> Thanks,
> David
> 
> 
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