similar to: cedta decided 'igraph' wasn't data.table aware

I have a graph with edge and vertex weights, stored in two data frames: --8<---------------cut here---------------start------------->8--- vertices <- data.frame(vertex=c("a","b","c","d"),weight=c(1,2,1,3)) edges <-

I just got this error: > library(igraph) > comp <- decompose.graph(gr) Error: protect(): protection stack overflow Error: protect(): protection stack overflow > what can I do? the digraph is, indeed, large (300,000 vertexes), but there are very many very small components (which I would rather not discard). PS. the doc for decompose.graph does not say which mode is the default. --

What do people use for SNA/graph analysis in R? So far I have been using igraph (it implements the Louvain community detection algorithm as multilevel.community, which is the killer feature for me). However, igraph is severely lacking in visualization, which I also need. graphviz & gephi are alleged to be good at visualization, but, apparently, not so for analysis (specifically, community

Hi, to count vector elements with some property, the standard idiom seems to be length(which): --8<---------------cut here---------------start------------->8--- x <- c(1,1,0,0,0) count.0 <- length(which(x == 0)) --8<---------------cut here---------------end--------------->8--- however, this approach allocates and discards 2 vectors: a logical vector of length=length(x) and an

Hi, I need this plot: given: x,y - numerical vectors of length N plot xi vs mean(yj such that |xj - xi|<epsilon) (running mean?) alternatively, discretize X as if for histogram plotting and plot mean y over the center of the histogram group. is there a simple way? thanks! -- Sam Steingold (http://sds.podval.org/) on CentOS release 5.6 (Final) X 11.0.60900031 http://thereligionofpeace.com

How do I convert a list to a matrix? --8<---------------cut here---------------start------------->8--- list(c(50000, 101), c(1e+05, 46), c(150000, 31), c(2e+05, 17), c(250000, 19), c(3e+05, 11), c(350000, 12), c(4e+05, 25), c(450000, 19), c(5e+05, 16)) as.matrix(a) [,1] [1,] Numeric,2 [2,] Numeric,2 [3,] Numeric,2 [4,] Numeric,2 [5,] Numeric,2 [6,] Numeric,2 [7,]

suppose I have two sets of vectors: x1,x2,...,xN and y1,y2,...,yN. I want N correlations: cor(x1,y1), cor(x2,y2), ..., cor(xN,yN). my sets of vectors are arranged as data frames x & y (vector=column): x <- data.frame(a=rnorm(10),b=rnorm(10),c=rnorm(10)) y <- data.frame(d=rnorm(10),e=rnorm(10),f=rnorm(10)) cor(x,y) returns a _matrix_ of all pairwise correlations: cor(x,y)

The following code: --8<---------------cut here---------------start------------->8--- > myfun <- function (x) list(x=x,y=x*x) > z <- as.data.frame(do.call(rbind,lapply(1:3,function(x) c(a=paste("a",x,sep=""),as.list(unlist(list(b=myfun(x),c=myfun(x*x*x)))))))) > z a b.x b.y c.x c.y 1 a1 1 1 1 1 2 a2 2 4 8 64 3 a3 3 9 27 729

I find myself doing --8<---------------cut here---------------start------------->8--- tab <- table(...) tab <- tab[tab > 0] tab <- sort(tab,decreasing=TRUE) --8<---------------cut here---------------end--------------->8--- all the time. I am wondering if the "drop 0" (and maybe even sort?) can be effected by some magic argument to table() which I fail to discover

Hello, I'm having trouble getting the igraph package to load on Solaris. I can get igraph to compile and install from a local directory without issues using simply "R CMD INSTALL igraph", however "library(igraph)" from within R gives the following errors: Error in dyn.load(x, as.logical(local), as.logical(now)) : unable to load shared library

Hi R users, I got warning messages when installing the package, and I pasted the messages below. I checked updates that my R-studio is already the newest version. I don't know how to solve the problem. Thanks for your help. > library(igraph) Error in dyn.load(file, DLLpath = DLLpath, ...) : unable to load shared object

Been and R-user for about 5 years now in an industrial setting, and always find the mailing list most helpful. I have run into problem compiling igraph on R. I have contacted the maintainer of igraph, and he has determined that it is not an igraph problem. System is FreeBSD 7.2, R-2.10.1 [also have a sandbox machine running FreeBSD 7.3, R-2.11]. Both machines fail the installation of igraph.

I have R 2.15.0 running under Windows 7. I installed the igraph 0.5.4 package from a zip file. When I attempt to load igraph using "library(igraph)", I get the error package igraph is not installed for arch=x64.  When I repeat this using the 32-bit version of R, I get the same basic error but with "arch=i386" instead of x64. [[alternative HTML version deleted]]

Hi! I want to use R for network analysis and have tried to install the 'igraph' package. Unfortunately, the installation is aborted by an error: --snip-- gcc -std=gnu99 -I/usr/lib64/R/include -DNDEBUG -I/usr/local/include -DUSING_R -I. -Ics -Iglpk -Iglpk/amd -Iglpk/colamd -I/usr/local/include -fmessage-length=0 -O2 -Wall -D_FORTIFY_SOURCE=2 -fstack-protector -funwind-tables

Dear All, I am trying to install igraph package but getting the following error: ------------------ make: *** [/usr/lib64/R/etc/Makeconf:159: foreign-graphml.o] Error 1 ERROR: compilation failed for package ?igraph? * removing ?/usr/lib64/R/library/igraph? ------------------ Any ideas? Thanks in advance, Paul

On Mon, Oct 9, 2017 at 4:42 PM, Tom Callaway <tcallawa at redhat.com> wrote: > > On 10/09/2017 11:16 AM, Paul Smith wrote: >> >> I am trying to install >> >> igraph package >> >> but getting the following error: >> >> ------------------ >> make: *** [/usr/lib64/R/etc/Makeconf:159: foreign-graphml.o] Error 1 >> ERROR:

summary() for a factor prints: ColName SNDK : 72 VXX : 36 MWW : 30 ACI : 28 FRO : 28 (Other):1801 it would have been much more useful if it additionally printed frequency stats as if by summary(aggregate(frame$ColName,by=list(frame$ColName),FUN=length)$x) -- Sam Steingold (http://sds.podval.org/) on CentOS release 5.3 (Final) http://jihadwatch.org

Dear R users, I'm using graph library to create a mesh-like network topology and implement a load balance routing algorithm. The current implementation uses graph, RBGL, and Rgraphviz libraries. I have a few attributes on every edge to represent the network loading and capacity, and I frequently update these values. However, I found it works so slow and right now I'm consider rewriting it

Dear R users: There appears to be a conflict between the statnet package and the igraph package. With igraph loaded into memory, the network() function of statnet failed, returning the error to the effect that the matrix being converted was "not a graph object." Removing igraph from memory restored statnet to proper function. Apologies if this is redundant. I could not find this

Estimados, estoy ?jugando? con unos datos clínicos donde realizo un análisis de redes, utilicé igraph como nerwork, pero finalmente uso igraph (creo que tiene más opciónes). Son algo de 200 nodos y algo más de 2000 relaciones. Puedo graficarlos. Los datos están de la siguiente forma, por ejemplo, individuo, patología, (las dos primeras columnas son la relación), luego un fármaco, el grupo