search for: venndiagram

Dear list, When I use VennDiagram package, I got a error as follow: venn.plot <- draw.pairwise.venn( area1 = 3186, area2 = 325, cross.area = 5880); Error in draw.pairwise.venn(area1 = 3186, area2 = 325, cross.area = 588) : Impossible: cross section area too large. Does anyone have suggestion? Thank you.

Hello, Even though the documentation says that it is possible to have a scaled Euler diagram for three categories, this fails to happen. All of the circles are the same size. My commands are : library(VennDiagram) A <- 1:10 B <- 9:18 C <- 15:500 venn.diagram(list(NameOne=A, NameTwo=B, NameThree=C), "example.tiff", euler.d = TRUE, scaled = TRUE, fill = c("red", "blue", "green"), cat.pos = 0) I also notice that adjusting just one text label with cat.just = lis...

...code and received the displayed error. I failed to turn up any solutions to this error... Any suggestions appreciated, Karl library(venneuler) ve <- venneuler(c("A"=1, "B"=2, "C"=3, "A&C"=0.5, "A&B&C"=0.1)) class(ve) [1] "VennDiagram" ve$colors <- c("red", "green", "blue") plot(ve) Error in col * 360 : non-numeric argument to binary operator -- Karl Brand Department of Genetics Erasmus MC Dr Molewaterplein 50 3015 GE Rotterdam T +31 (0)10 704 3457 |F +31 (0)10 704 4743 |M +31 (0)642 77...

...39;forcats' 'dplyr' 'readr' 'ggplot2' 'ggfortify' 'reshape2' 'rlang' 'loose.rock' Packages suggested but not available: 'testthat' 'knitr' 'rmarkdown' 'survcomp' 'pROC' 'devtools' 'VennDiagram' 'BiocStyle' 'curatedTCGAData' VignetteBuilder package required for checking but not installed: 'knitr' The suggested packages are required for a complete check. Checking can be attempted without them by setting the environment variable _R_CHECK_FORCE_SUGGESTS_ to a fa...

...prefix = "col") m <- as.data.frame(m) I need to generate a Venn diagram from this data.frame, displaying the various intersections of 'yes' for the different columns. Ideally, the circle for each column should be proportional to the number of non-NA entries. The package "VennDiagram" (described here: http://www.biomedcentral.com/1471-2105/12/35) can do all this. However, I have not been able to figure out how to transform the data.frame into the required list format. Any suggestions on how to do this? Many thanks, Lara

I was wondering if anyone could help me figure out how to make a Venn diagram in R where the circles are scaled to the size of each dataset. I have looked at the information for venn (in gplots) and vennDiagram (in limma) and I cannot seem to figure out what parameter to change. I have looked this up online and do not seem to be seeing anyone else who has posted this question or the answer to it before. I see graphs though that are purported to be made in R that are scaled like this, so I think it must...

Hi all, I am trying to plot a venn diagram using vennDiagram in limma package, but I have no idea how to have it colorful such as the color one created by the following website: http://www.pangloss.com/seidel/Protocols/venn.cgi. Any one has any advice? Thanks, D.

Hi there, Is there a way to control the circle diameter in venn.diagram function of VennDiagram package? Thanks Mike [[alternative HTML version deleted]]

Dear r-helpers, Here I would like to have your kind helps on generating Venn diagram. There are some packages within R on this task, like venneuler, VennDiagram, vennerable. But, vennerable can not be installed on my Mac book. It seems VennDiagram can not work on my data. And, venneuler may have generated a wrong Venn diagram to me. Do you have any experience/expertise on those Venn diagram? Could you please give me any directions on that? Thanks in adva...

Hi list, I have a question on how to identify the overlapped items from two vectors: >x<-c(0,1,2) >y<-c(1,2,2,3) and plot the number of the overlapped as well as non-overlapped in a diagram? Thanks much, Allen [[alternative HTML version deleted]]

...;dplyr' 'readr' 'ggplot2' 'ggfortify' 'reshape2' 'rlang' 'loose.rock' > > Packages suggested but not available: > 'testthat' 'knitr' 'rmarkdown' 'survcomp' 'pROC' 'devtools' > 'VennDiagram' 'BiocStyle' 'curatedTCGAData' > > VignetteBuilder package required for checking but not installed: 'knitr' > > The suggested packages are required for a complete check. > Checking can be attempted without them by setting the environment > variable _R...

Hello, I am a total beginner with ?R? and found a package ?venn? to create a venn diagram. The problem is, I cannot create the vectors required for the diagram. The manual say: "R> venn(accession, libname, main = "All samples") where accession was a vector containing the codes identifying the RNA sequences, and libname was a vector containing the codes identifying the

...orm universe as union of both sets universe <- sort( unique( c(set1, set2) ) ) Counts <- matrix(0, nrow=length(universe), ncol=2) colnames(Counts) <- names for (i in 1:length(universe)) { Counts[i,1] <- universe[i] %in% set1 Counts[i,2] <- universe[i] %in% set2 } vennDiagram( vennCounts(Counts),main=title,... ) } # How I draw the Venn diagram Venn2(cPostArrayHitsNames,cPreArrayHitsNames,names=c("Post","Pre"),title=PatientID) Unfortunately something like this doesn't work: VennPlot<-Venn2(cPostArrayHitsNames,cPreArrayHitsNames,names=c("...

Esteemed UseRs and DevelopeRs, Just coming to terms with the very attractive proportional venn gernator, venneuler(), but would like to customize a few things. Is it possible to- -suppress all circle labels? -suppress only certain circle labels? -print specific text strings at specified locations within the circles? and unions? -specify circle colors? -specify label font, size & color?

...t, design) > cont.matrix <- makeContrasts(DMSO10-Un, DMSO5-Un, levels=design) > fit2 <- contrasts.fit(fit, cont.matrix) > fit2 <- eBayes(fit2) > tTUni<- topTable(fitUni, adjust="fdr", sort.by="B", number=numGenes) > results <- decideTests(fit2) > vennDiagram(results,include=c("up","down"),counts.col=c("red","green")) ## ### I get zero genes for upregulation and downregulation ##### Senior Research Associate Bioinformatics Department Jubilant Biosys Pvt Ltd, #96, Industrial Suburb, 2nd Stage Yeshwantpur, Bangalo...

Hello! I have this problem: I want to create a Venn's diagram with three lists of genes'names. The first is all the genome, the second a subset of it comprising all mitochondrial genes, and the third including all genes that correlate with a given gene. This is what I do: > library(gplots) > A<-read.delim("F:/.../mito genes just names.txt") >

Hi there ! I've got 7 Samples that may contain 29 differents kinds of material.... every line below corresponds to a differente kind of material, example: Sample 1, 2,3,5 and 6 has material 1 .... So I want to know how can I do a Venn Diagram with the data below .... ps ( it was generated by a csv, where every line is sep with (";")) Can someone helps me ? thanks csv file :

I'm trying to plot Venn diagrams with more than 3 sets (5 actually) in order to describe graphically the genetic variation between populations. I tried the limma library but realised it can only plot 3 sets. Is there any solution? Of course I could plot the chart manually but it'll take too long (have other datasets)..... One of my dataset is given below. THanks for any advice. j

CRAN (and crantastic) updates this week New packages ------------ * disclapmix (0.1) Maintainer: Mikkel Meyer Andersen Author(s): Mikkel Meyer Andersen and Poul Svante Eriksen License: GPL-2 http://crantastic.org/packages/disclapmix disclapmix makes inference in a mixture of Discrete Laplace distributions using the EM algorithm. * EstSimPDMP (1.1) Maintainer: Unknown Author(s):