similar to: barchart with bars attached to y=0-line

Hi, I'm trying to figure out how anova works in R by translating the examples in Sokal And Rohlf's (1995 3rd edition) Biometry. I've hit a snag with planned comparisons, their box 9.4 and section 9.6. It's a basic anova design: treatment <- factor(rep(c("control", "glucose", "fructose", "gluc+fruct",

So I''m trying to do that hot new thing with AJAXy forms: http://idiet.toasterwaffles.com/foods/list Here''s the relevant code in list.rhtml (for the form portion) <tbody> <%= render_collection_of_partials "list_stripes", @foods %> </tbody> <tfoot> <tr id="addFood"><%= form_remote_tag( :html =>

Hi, I'm trying to read in a fairly large (92 observations by 3680 variables) table into R from a space-delimited text file (attached) using the command: d8 <- read.table('d8.r', header=T). The function call runs to completion, and I get back a valid table object. However, starting at column 999, the table records the value TRUE when it should record T (T's in columns 998 and

Hi, I have a dataset with a continuous response variable and, among other predictors, an ordinal variable. Here is what it could look like treatment <- factor(rep(c("AA", "AC", "AD","AE", "AB"), each = 10)) length <- c(75, 67, 70, 75, 65, 71, 67, 67, 76, 68, 57, 58, 60, 59, 62, 60, 60, 57, 59, 61, 58,

Dear all, I am a R beginner, and I am looking for a way to do the same thing for all levels of a column in a table. Basically, I have a bunch of protein sequences composed of different amino acid residues, and each residue is represented by an uppercase letter. I want to calculate the ratio of different amino acid residues at each position of the proteins. Here is an example table: Proteins

Dear all, I have some questions regarding the validity an implementation of statistical tests based on linear models and loess. I've searched the R-help arhives and found several informative threads that related to my questions, but there are still a few issues I'm not clear about. I'd be grateful for guidance. Background and data set: I wish to compare the growth and metabolism

Hi After melt you can change levels of your factor variable. Again with the toy example. > levels(temp$variable) [1] "y1" "y2" "y3" "y4" > levels(temp$variable) <- levels(temp$variable)[c(2,4,1,3)] > levels(temp$variable) [1] "y2" "y4" "y1" "y3" > And you will get graphs with this new levels ordering.

Hi Petr; I would like to get a plot with names as they are in the original file. They are chemical names and I have 733 in the my file. For example, let me give to chemical names "*2-hydroxybutyrate/2-hydroxyisobutyrate*" and "*palmitoyl-arachidonoyl-glycerol (16:0/20:4) [1]**" .So, what should I put [c(2,3,1)] part in the command: iris$MySpecies<-factor(iris$Species,

Petr, there was a thinko in your response. tmp <- data.frame(m=factor(letters[1:4]), n=1:4) tmp tmp$m <- factor(tmp$m, levels=c("c","b","a","d")) ## right tmp[order(tmp$m),] tmp <- data.frame(m=factor(letters[1:4]), n=1:4) levels(tmp$m) <- c("c","b","a","d") ## wrong tmp[order(tmp$m),] changing levels

Hi Petr and Richard; Thanks for your responses and supports. I just faced a different problem. I have the following R codes and work well. p <- ggplot(a, aes(x=Phenotypes, y=Metabolites, size=abs(Beta), colour=factor(sign(Beta)))) + theme(axis.text=element_text(size = 5)) p1<-p+geom_point() p2<-p1+theme(panel.grid.major = element_blank(), panel.grid.minor = element_blank(),

Hi What do you mean ?without reordering the names?. Factor variable is ordered according to its levels and you can freely change the ordering. This is why factors are useful and worth to use in many cases instead of character vectors. See this result > iris$MySpecies<-factor(iris$Species, levels(iris$Species)[c(2,3,1)]) > p<-ggplot(iris, aes(x=Sepal.Length, y=Species)) >

Hi Maybe there are other ways but I would split data to several chunks e.g. in list and use for cycle to fill multipage pdf. With the toy data something like library(reshape2) library(ggplot2) temp <- melt(temp) temp.s<-split(temp, cut(1:nrow(temp), 2)) pdf("temp.pdf") for (i in 1: length(temp.s)) { p <- ggplot(temp.s[[i]], aes(x=par1, y=variable, size=abs(value),

Hi When you load external file to R, character variables are converted to factors by default and alphabetically sorted. I have limited connection to internet, so I cannot find the answer, you could try it yourself. Maybe you could try not to convert vector with names to factor, which, for plotting issue is not different from factor coding. See ?read.table for details However I am not sure if it

Dear all, Here is my code which am using to combine 5th column from different data sets. Here is the function to do my job genesymbol.append.file <-NULL gene.column <- NULL readGeneSymbol <- function(files,genesymbol.column=5){ for(i in fnames){ temp <- read.table(fnames,header=T,sep="\t",stringsAsFactors=F,quote="\"")

Hi Petr; Thanks so much. Exactly this is what I need. I will play to change color and so on but this backbound is perfect to me. I do appreciate your help and support. Regards, Greg On Thu, Feb 8, 2018 at 1:29 PM, PIKAL Petr <petr.pikal at precheza.cz> wrote: > Hi > > I copied your values to R, here it is > > > > > dput(temp) > > > > temp <-

Hi Petr; Thanks so much. This is great! Although last Sunday, alternatively, I have solved the problem using the following statement at the very end of the program. * ggsave('circle.pdf', p4, height = 70, width = 8, device=pdf, limitsize = F, dpi=300).* This works very well too. Asa my categorical variables are in my Y axis, my R program reorders the names on Y-axis. However, I would

Hi scale_colour_gradient(?red?, ?blue?) should do the trick. Actually I found it by Google ggplot colour http://www.cookbook-r.com/Graphs/Colors_(ggplot2)/ http://www.sthda.com/english/wiki/ggplot2-colors-how-to-change-colors-automatically-and-manually#gradient-colors-for-scatter-plots question. So you could find it too and probably far more quickly then myself as I have also other duties. Cheers

Hi Peter; The R code you provided works very well. Once again thanks so much for this. The number of variables in my data set that should appear on the y-axis is 733 and they are not numerical (for example the name of one variable is *palmitoyl-arachidonoyl-glycerol (16:0/20:4) [1]**. So, the plot looks very messy in one page. How can I make the plot to print out on multiple pages? Regards,

Hi Petr; Thanks. I do save the result in pdf by using the following command. ggsave("z7.pdf", p4, height = 95, width = 8, device=pdf, limitsize = F,dpi=300) I can achieve the y axis with 733 levels. But I need get the plot WITHOUT reordering the names. Regards, Greg On Fri, Feb 16, 2018 at 3:39 PM, PIKAL Petr <petr.pikal at precheza.cz> wrote: > Hi > > >