[Bioc-devel] IGV - a new package in preparation

[Gabe Becker]

Paul,

Sounds cool! My one note after a quick first pass is that here:

On Wed, Mar 7, 2018 at 2:15 PM, Paul Shannon <pshannon at systemsbiology.org>
wrote:
>
> Note that though igv.js typically gets its track data from CORS/indexed
> webservers, the IGV package will also support locally created R data.frames
> describing either bed or wig tracks - annotation and quantitative,
> respectively - without any need to host those tracks on a pre-existing
> webserver.  httpuv includes a minimal webserver which can adequately serve
> the temporary files IGV creates from your data.frames.
>

It seems to me that those data.frames should be replaced with the core
Bioconductor object classes which represent the types of information being
displayed.  You might look to epivizr for  inspiration here, which (IIRC)
allows "tracks" within epiviz to be backed by bioconductor objects.

Best,
~G

>
>
>  - Paul
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-- 
Gabriel Becker, Ph.D
Scientist
Bioinformatics and Computational Biology
Genentech Research

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