[BioC] LambdaSets converting the results into a data.frame

[joe j]

Thanks, Steve,
What I've in mind is essentially a matrix of 3 columns:
1.vertex label, 2. edge connectivity (from 1 to maximum edge
connectivity) or let's call it Lambda-K-set,3. a lambda set group
identifier; let's call it group

For the example:
 con <- file(system.file("XML/snalambdaex.gxl",package="RBGL"))
 coex <- fromGXL(con)
 close(con)
 lambdaSets(coex)

I'd like the following output:

1. Node; 2. Lambda-K-set; 3. Group

A1        1        1
A2        1        1
--
A12      1        1


A1        2        1
A2        2        1
--
A8        2        1

A9        2       2
A10      2       2
--
A12      2       2


A1       3       1
A2       3       1
--
A4       3       1


A5      3       2
A6      3       2
--
A8      3       2

Best regards,
Joe

On Mon, May 16, 2011 at 3:50 PM, Steve Lianoglou
<mailinglist.honeypot at gmail.com> wrote:
> Hi,
>
> On Mon, May 16, 2011 at 4:29 AM, joe j <joe.stata at gmail.com> wrote:
>> Dear all,
>>
>> This is probably a simple question, but any pointers would be great.
>>
>> I am using  "lambdaSets" in the package "RBGL" in R. What I would like
>> is to have all the results of "lambdaSets" in a data.frame because I
>> will be comparing the results for different years.
>
> How do you expect that data.frame to look like?
>
> For instance, if we run the example code in the lambdaSets function
> and set the last statement to a variable (`lset`):
>
> R> con <- file(system.file("XML/snalambdaex.gxl",package="RBGL"))
> R> coex <- fromGXL(con)
> R> close(con)
> R> lset <- lambdaSets(coex)
>
> What do you expect `lset` as a data.frame to look like?
>
> lset[[1]] is a single integer, and lset[[2]] is a list of lists of
> nodes -- each of varying lengths. It seems that this type of data
> isn't well suited to be stuffed into a data.frame, but if you can give
> us an idea of how this `lset` object might look like as a data.frame,
> perhaps someone can help you get it into that form.
>
> -steve
>
> --
> Steve Lianoglou
> Graduate Student: Computational Systems Biology
>  | Memorial Sloan-Kettering Cancer Center
>  | Weill Medical College of Cornell University
> Contact Info: http://cbio.mskcc.org/~lianos/contact
>