Get n-th degree neighbor - cytoscape-discuss

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Message from discussion Get n-th degree neighbor
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Date: Fri, 16 Dec 2011 09:18:47 +0100
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Subject: Re: [Cytoscape-discuss] Get n-th degree neighbor
From: giovanni scardoni <giovanni.scard...@gmail.com>
To: cytoscape-discuss@googlegroups.com
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Hi Mike,
all my plugins (CentiScaPe, Interference, Pesca) need some network function=
s.
Which functions will not available in 3.0?  I hope the basic functions
will remain.
If needed I can help on implementing some of them.
thanks
Giovanni

2011/12/15 Mike Smoot <msm...@ucsd.edu>:
> Lot's of these sorts of functions have been implemented in the network
> analyzer plugin. =A0While these will be available through the user interf=
ace
> in 3.0, they are not (yet) available from a programming API. =A0It's cert=
ainly
> possible to add a new API to Cytoscape to make these sorts of functions m=
ore
> readily available to programmers. =A0It's "just" a matter of defining and
> implementing what should go in there. =A0 It's worth noting that the same=
 can
> be said for many aspects of Cytoscape's functionality that may be missing=
 or
> unavailable. =A0 Enterprising volunteers are welcome!
>
>
> thanks,
> Mike
>
> BTW, to get n-th neighbors in 3.0 just call network.getNeighborList()
> multiple times.
>
>
> On Fri, Dec 9, 2011 at 12:12 PM, Alexander Pico <ap...@gladstone.ucsf.edu=
>
> wrote:
>>
>> I have a colleague who was surprised that there weren't more "networky"
>> functions in the API. As a new Cytoscape plugin developer, he wants to d=
o
>> some basic things like getting the n-th degree neighbors of a node.
>>
>> In 2.x I think you just have to run getAdjacentIndecies() multiple times
>> (or
>> something like that). =A0How would you do this in 3.0? =A0Would it be he=
lpful
>> to
>> come up with a set of these "networky" functions to layer into the API?
>>
>> =A0- Alex
>>
>>
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>
>
>
> --
> ____________________________________________________________
> Michael Smoot, Ph.D.
> UCSD Department of Medicine
> tel: 858-822-4756
>
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--=20
Giovanni Scardoni
The Center for BioMedical Computing (CBMC)
www.cbmc.it
University of Verona
Strada le Grazie, 15 -37134
Verona -Italy
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