[R] what would break a citation network? [Error in as.igraph.vs(graph, vids) : Invalid vertex names]

[Drake Gossi]

So, "davis" was on the original edge list. It's just that I didn't
want to reproduce the whole thing, since it was like 75 rows long, and
I didn't want the email to get too cumbersome. In fact, that's partly
why I was so confused, since that name was on both lists.

But, even stranger, I ran the code today again as an experiment, and
it worked just fine. Why would it work one day and not another?

I should say that I'm at a university, too, and that therefore I'm on
a public computer.

Thank you for the link as well.

D


On Sat, May 4, 2019 at 10:35 PM K. Elo <maillists using pp.inet.fi> wrote:
>
> Hi Drake,
>
> 2019-05-04, 17:34 -0700, Drake Gossi wrote:
> > Hello everyone,
> >
> > I'm trying to learn how to put together a citation network, and, in
> > doing so, I'm playing around with a data set of my own making. I'm
> > going back and forth between two .csv files. One has two columns and
> > is simply labeled "to" and "from":
> >
> > to from
> > rickert heidegger
> > rickert nietzsche
> > rickert parmenides
> > rickert diogenes
> > rickert latour
> > rickert haraway
> > rickert barad
> > rickert burke
> > boyle mackenzie
> > boyle flusser
> > boyle kittler
> > boyle massumi
> > boyle mattern
> > boyle rickert
> > boyle berlant
> > boyle ulmer
> > boyle manovich
> > boyle burke
> >
> > So, rickert and boyle are academics, and the people to the right are
> > other scholars they cite. This one .csv file goes on for 75 rows like
> > this.
> >
> > But I have another file too, which looks like this. The two columns
> > are "author" and "association":
> >
> > author association
> > latour STS
> > burke rhetoric
> > kittler media theory
> > heidegger philosophy
> > barthes philosophy
> > mackenzie media theory
> > massumi affect theory
> > nietzsche philosophy
> > flusser media theory
> > rickert rhetoric
> > spinuzzi tech comm
> > boyle rhetoric
> > gries rhetoric
> > jeff rice rhetoric
> > jenny rice rhetoric
> > gunn rhetoric
> > rivers rhetoric
> > mol STS
> > stengers STS
> > barad STS
> > braidotti posthumanism
> > wolfe posthumanism
> > haraway STS
> >
> > The trouble is, when I add the following (davis, rhetoric) onto the
> > second list, the citation network breaks.
> >
> > ...
> > ...
> > braidotti posthumanism
> > wolfe posthumanism
> > haraway STS
> > davis rhetoric
> >
> > My question is: why would the addition of a single row break the
> > analysis? I am getting this error message:
> >
> > Error in as.igraph.vs(graph, vids) : Invalid vertex names
> >
> > My code is this:
> >
> > install.packages("igraph")
> > library(igraph)
> > myEdgeList <- as.matrix(read.csv("myEdgeList.csv", as.is=TRUE))
> > G <- graph.edgelist(myEdgeList, directed=FALSE)
> > myThemes <- read.csv("myThemes.csv", as.is=TRUE)
> > rowNumberofMatchingCases <- which(myThemes$association %in%
> > c("rhetoric"
> >                                                               ))
> > authorsOfMatchingCases <- myThemes$author [rowNumberofMatchingCases]
> > H <- induced.subgraph (G, authorsOfMatchingCases)
> > lout <- layout.fruchterman.reingold(H)
> > plot.igraph(H, layout=lout, vertex.size=5, vertex.label.cex=.5)
> >
> > My guess is I have broken some fundamental rule of graphing, like one
> > of the names performs too many functions in the graph, or I have
> > "rhetoric" too many times in the is the second csv file...
> >
> > But I really think the better question is: if you were just fooling
> > around and trying to make a citation network from hand and by
> > scratch,
> > like I'm doing, what could you not do with the list? and does this
> > have something to do with transitivity?
> >
> > Drake
>
> With "davis" you try to refer to a vertex (node) not existing in your
> vertex list. This results in an error.
>
> Take a look on this, if I understood your problem correctly it is a
> similar issue:
>
>
> https://stackoverflow.com/questions/30201510/error-with-subgraph-in-igraph-package
>
> HTH,
> Kimmo
>
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