[BioC] names of edges in graph classes

[Nishant Gopalakrishnan]

Hi Paul,

 I am not sure why the edges are named in two different ways.

The  "| " character is reserved as an edge separator and  node names
cannot contain "|".   It looks like you are right that they should have
had a consistent naming schema.

Nishant

On 01/04/2011 06:13 PM, Paul Shannon wrote:
> I notice that edges appear to be named in two different ways:
>
>   
>> edgeNames (g) [1:2]
>>     
>  [1] "1~2" "1~3"
>
>   
>> names (edgeData (g)) [1:2]
>>     
>  [1] "1|2" "1|3"
>
> Does this different choice for separator character -- tilde in one case, vertical bar in the other -- convey some meaning it would behoove me to understand? Or is it perhaps an accidental difference?
>
> A drawback to the current approach is that edgeNames (e.g., "1~2") cannot be used to index into edgeData:
>
>   
>> edgeData (g) [["1|2"]]   # this works
>>     
>    $edgeType
>    [1] "cluster"
>    $category
>    [1] 1
>
>   
>> edgeData (g) [["1~2"]]  # this doesn't
>>     
>    NULL
>
> Thanks,
>
> - Paul
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