[Bioc-devel] efficient use of edgeData (graph)

[Nishant Gopalakrishnan]

Hi Paul,

Why not directly use the edgeData function with the attribute name you
want instead of having to retrieve the edgeData for all the attributes
and then subsetting.

ie   edgeData(graph, from  , to , attr = edge.attribute.name)

Nishant

On 11/10/2010 07:01 AM, Paul Shannon wrote:
> In the RCytoscape package I have a convenience function which returns the values of a specified edge attribute, for all edges in the graph.  It is ponderously slow on a graph of 9000 edges.
>
> I define it this way:
>
> function (graph, edge.attribute.name) {
>   unlist (sapply (names (edgeData (graph)), function (n) edgeData (graph)[[n]][[edge.attribute.name]]))
>   }
>
> Can anyone suggest ways to speed this up?   I fear I am missing something obvious.
>
> Thanks!
>
>  - Paul
> _______________________________________________
> Bioc-devel at stat.math.ethz.ch mailing list
> https://stat.ethz.ch/mailman/listinfo/bioc-devel
>