similar to: newbie question on importing and parsing file by row

Suppose we have the following data set: Men Women Dieting 10 30 Non-dieting 5 60 If I run the Fisher exact test in R then what does alternative = greater (or less) imply? For example: mat = matrix(c(10,5,30,60), 2,2) fisher.test(mat,alternative ="greater") I get the p-value = 0.01588 and odds ratio = 3.943534. Also, when I flip the rows of

rsync does not sync the timestamp on symlink (Solaris 8). It is probablly due to the limitation of Unix implementation of symlink, but I would like to know why rsync/Unix does not do this, and what we can do about it. Is the conclusion that "rsync syncs everything except the timestamp on symlink"? Why do I need timestamp on symlink? Supposed something stopped working because something

Hi all, I have been struggling with this problem for a few days. I have a data table like this: gene rpkm1 diff1 rpkm2 diff2 gene1 23 50 13 120 gene2 111 220 827 1200 gene3 75 998 71 910 And I want to re-format it so that, for each gene, I have a 2x2 contingency table, such as: gene rpkm diff gene1 23 50 gene1 13 120 gene2 111 220 gene2 827

Hello, I’m reaching out because our online radio station (sites.up.edu/kdup/) has stopped streaming in the last week - the website itself works fine but when anyone attempts to listen to the live music stream they receive a message that says “cannot connect to the server “icecast.up.edu.” Do we need to update the server, or is this a problem that someone else can take care of? Let me know if I

Dear all Seems that puzzles always come in packs. I was asked to help with some statistics in blood analysis. (You can not refuse your wife's asks :-). She has contingency table for values IgVH mutation and ZAP expression. I can do chi-square test (in R) and get a results, and with some literature I can try explain them. However she found an article in which they use SPSS and use

The following contingency table generates p-value > 1 from fisher.test() ff = c(0,10,250,5000); dim(ff) = c(2,2); fhisher.test(ff)$p.value Sean [[alternative HTML version deleted]]

The following contingency table generates p-value > 1 from fisher.test() ff = c(0,10,250,5000); dim(ff) = c(2,2); fhisher.test(ff)$p.value Sean [[alternative HTML version deleted]]

Dear all, I have a dataset with qualitative variables (factors) and I want to test the null hypothesis of independance between two variables for each pair by using appropriate tests on contingency tables. I first applied chisq.test and obtained dependance in almost all cases with extremely small p-values and warning messages. > chisq.test(table(data$ins.f, data$ins.st))$p.val [1]

I've got a win98 laptop and a linux box. On my linux box, I smbmount a directory from the laptop. Alas, win98 boxes crash a lot, and I move the laptop a lot... to and from work. If the laptop crashes or if I move it with a shared directory mounted on my linux box, that mount gets "Stuck".... it's present in /etc/mtab but when I cd to it and do an ls it says: 243 emily ~>ls

I have the following contingency table dat <- matrix(c(1,506,13714,878702),nr=2) And I want to test if their is an association between events A:{a,not(a)} and B:{b,not(b)} | b | not(b) | --------+-----+--------+ a | 1 | 13714 | --------+-----+--------+ not(a) | 506 | 878702 | --------+-----+--------+ I am worried that prop.test and chisq.test are not valid given the

Hi, I need to run a Fisher's exact test on thousands of 2x2 contingency tables, and repeat this process several thousand times (this is a part of the permutation test for a genome-wide association study). How can I run this process most efficiently? Is there any way to optimize R code? I have my data in a 2x2xN array (N ~ 5 K; eventually N will be ~ 500 K), and use apply inside the loop:

I have written a function to plot data which will be used for various different chemistries. A simplified version is: plot_data <- function(risk,levels,chem,sd2,measure){ plot(risk, levels,main=paste ("per", sd2, measure, "\n in usual", chem)) } The problem is with the title. This works fine if the variable "chem" is just text, but if it is an expression then

Hi, please can you help me. When I add a legend to a boxplot it appears inside the plot area, how do you get it into the margins? I have already changed the parameters so there is space for it on the margin on the right hand side of the graph. Thanks, Emily [[alternative HTML version deleted]]

I'm trying to figure out if it's possible to use a character string as an equation, e.g: eqn1string <- "x^2 + x + 5" Then I want to tell R: 1) that eqn1string is actually an equation (even though it was stored as a character string), and 2) to apply the equation to a specified value of x (e.g. given x <- 6, what is the result of the equation). Thanks in advance for any

Hello. I apologize if there is a simple answer to this question, but I haven't been able to figure it out. Our people use various clients (pine 4.50 with maildir patch, eudora, messenger, outlook, squirrelmail), and all of them work with courier-imap. But I've become very interested in dovecot after reading about it, so I'm trying it out on another server. The results are mixed.

Dear all, how can I "reshape"/"cast" the following matrix 00;01;10;11 John.Mike;123;313;12;31 John.Jim;54;57;39;36 John.Steve;135;47;47;74 Mike.Jim;63;37;27;16 Mike.Steve;15;15;5;61 Jim.Steve;6;10;34;35 into a set of stacked 2x2 contingency tables 0;1 John;123;12 Mike;313;31 John;54;39 Jim;57;36 John;135;47 Steve;47;16 ... so that the "fisher.test" and

Hello, all I am building a R package using Fortran source code. The Fortran code is a subroutine. I can use "R CMD SHLIB bar.f -o bar.o" to create the shared library. For the R package, I put the fortran file in the src/ and I use R code as follows: ".First.lib"<-function(libname,pkgname){library.dynam("barpkg",pkgname,libname)} barfun<-function(n,x){

I thought replacing the spaces following instances of +++,++,+,- with "\n" and then reading with scan should succeed. Like Ivan Krylov I was fairly sure that you meant the minus sign to be "-" rather than "?", but perhaps your were using MS Word as an editor which is inconsistent with effective use of R. If so, learn to use a proper programming editor, and in any case

Hello, I'm using R to apply Fishers exact test to a whole pile of contingency tables, and I've run into the bug shown below. regards, Francis -- > dat1 = matrix(c(0,1,0,1,0,0,1,0,0,0,1,0,1,0,0,1,0,0,0,1,0,1,0,0,1,0,0,0,0, 1,1,0,0,1,0,0,1,0,0,1,0,0,3,0,0,2,0,0,1,0,0,0,1,0,0,2,0,0, 2,0,0,1,0,1,0,0,3,0,0,2,0,0,0,1,0,5,0,0,0,1,0,1,0,0), nrow=3) >

Awesome, thanks Arun, that's exactly what I was looking for! On Sat, Jan 26, 2013 at 9:21 PM, arun kirshna [via R] < ml-node+s789695n4656749h63@n4.nabble.com> wrote: > Hi, > Try this: > df[]<-lapply(df,as.character) > df2<-df > df[,1][grep("@",df$names)]<- "" > df > #names emails > #1 bob bobj@cup.com > #2