similar to: using axis with newline characters

I'm wondering how odds ratio is computed. I thought that it is (n11/n12)/(n21/n22), but it is not what fisher.test() computes. Could somebody let me know? > n11=3 > n12=1 > n21=1 > n22=3 > > n1_=n11+n12 > n2_=n21+n22 > > n_1=n11+n21 > n_2=n12+n22 > > x=rbind(c(n11,n12),c(n21,n22)) > > threshold=dhyper(n11,n1_,n2_,n_1) >

Hi, I have a R output that looks as follow: Rad:0 Rad1:2 Rad3:3 I want to make a new matrix that looks like : sample size is 2400 Variable    n11  n12 Rad            0     2400-0=2400 Rad1          2       2400-2 Rad3  3      2400-3   Thanks a lot for your time and help:) Best,Farnoosh Sheikhi [[alternative HTML version deleted]]

Hi everyone, I'm using the function 'HWE.exact' of 'genetics' package to compute p-values of the HWE test. My data set consists of ~600 subjects (cases and controls) typed at ~ 10K SNP markers; the test is applied separately to cases and controls. The genotypes are stored in a list of 'genotype' objects, all.geno, and p-values are calculated inside the loop over all

Hello, I have a data with following format:      Predictors          n11     n12     n21     n22     Odds.Ratio    log.ratio    se.log.odds. 1 ProcOR respirato     2 ProcVaric vein      3 DiagCardiac anom   4 DiagAllergy        5  DiagOth skin dx    6    DiagGastritis          I want to plot odds ratio by command: forestplot in rmeta library, but I get the following error constantly.  Error in

Dear list, why does the distance between the axis labels and the tick marks looks different for x axis and y axis in the plot (see code below). In fact, the x axis labels look furthest from the tickmarks than in the y axis. How can I make them look the same? par(mfrow=c(1,1), cex.axis = 0.5, cex.lab = 0.5) plot(1,1, axes = F) axis(1) axis(2) Thanks in advance Jonas [[alternative HTML version

I have been trying to determine the size of the R user base, and was asked to share my findings with this mailing list. Although I still don't have any definite estimate of this number, I do have some interesting and indicative information: 1. It appears that there are about 100,000 S-PLUS users. Rationale: According to Insightful's 2002 Annual Report, over 100,000 people use

The problem occurs when the sample odds ratio is Inf, such as in the following example. Given the fact that both upper bounds of the two 95% confidence intervals are Inf, I would have expected that the two lower bounds be equal, but they aren't. x <- matrix(c(9,4,0,2),2,2) x # [,1] [,2] #[1,] 9 0 #[2,] 4 2 rbind("two.sided.95CI"=fisher.test(x)$conf.int,

Hi, I have a genotype data for both case and controls and would like to calculate the HW p-value. However, since the number of one genotype is 0, I got wired result. Would someone help me to figure it out? Or confirm it's right? Thanks a lot. ============ > library( "genetics" ) NOTE: THIS PACKAGE IS NOW OBSOLETE. The R-Genetics project has developed an set of enhanced

Hello. Here is my R code. I used the functional data . Now I need to use the functional data by applying the kernels instead of the xi, yi functions. Bonjour. Voici mon code en R . J'ai utiliser les donn?es fonctionnelles . Maintenant j'ai besoin d'utiliser les donn?es fonctionnelles en appliquant les noyaux ? la place des fontions xi, yi library(MASS)

** I am using the following way to get p-values from fiser exact test. However, I do need to print for each pair the values "n00, n01, n10, n11". How can I print that as a table and not a matrix as below along with the p-value? Any help will be greatly appreciated fish <- function(y, x) {n00 = sum((1-x)*(1-y)); n01 = sum((1-x)*y); n10 = sum(x*(1-y)); n11 = sum(x*y); a =

Good evening dear administrators, It is with pleasure that I am writing to you to ask for help to finalize my R programming algorithm. Indeed, I attach this note to my code which deals with a case of independence test statistic . My request is to introduce the kernels using the functional data for this same code that I am sending you. So I list the lines for which we need to introduce the

Hm. Google tells me that kernel function is in stats package which comes with base installation and is invoked when you start R. search() [1] ".GlobalEnv" "package:stats" "package:graphics" [4] "package:grDevices" "package:utils" "package:datasets" [7] "package:methods" "Autoloads"

What do you *mean* "when you want to use the kernels". WHICH kernels? Use to do WHAT? In your browser, visit cran.r-project.org then select "Packages" from the list on the left. Then pick the alphabetic list. Now search for 'kernel'. You will find dozens of matches. On Wed, 14 Oct 2020 at 05:15, PIKAL Petr <petr.pikal at precheza.cz> wrote: > Hm. Google tells

I have a graph plotted in r.The x axis tickmarks are at 0,5,10. I need a graph with resolution of tickmarks at 0.1 interval.When i place tickmarks of 0.1 intervals using the following command axis(1, at=seq(0,5,0.1), cex.axis=0.7, las=2) I only get the tickmarks of 0.1 interval that are very closed placed in the graph.I need to increase the spacing between each tickmark. Please anyone help out

HI, You can do this in many ways: dat1<-read.table(text=" med1,med2,med3???? ?1,0,1?????? 0,1,1??? 2,0,0 ",sep=",",header=TRUE)?? #1st method library(reshape) dat2<-melt(dat1) dat3<-aggregate(dat2$value,by=list(dat2$variable),sum) ?colnames(dat3)<-c("name","sum(n11)") ?dat3 #? name sum(n11) #1 med1??????? 3 #2 med2??????? 1 #3 med3??????? 2

Hi, if I use the xyplot (or levelplot) function (lattice library) with the option axs="i", I have the problem that the tickmarks lie a bit outside the "plot-box". Consider for example: library(lattice) x<-seq(0,1,by=0.01) y<-seq(0,1,by=0.01) xyplot(y~x,type="l",xlim=c(0,1),ylim=c(0,1),scales=list

I am bewildered by the behaviour of tickmarks as demonstrated by the following code. (What I'm trying to do is draw a single tick mark extending from the axis all the way down to the tick label, which is two lines from the axis to make sure it doesn't overlap with the ``ordinary'' tick labels.) # Try 1: # Gap between tickmark and label. plot(1:10) axis(side = 1, at = 2.35,

Thanks Jeff, I attached a file with the program to my earlier email because the posting guide seemed to imply that non-binary attachments would work. But I see that the file was stripped off. I installed the program file on a web site, but when I downloaded it, the line breaks were stripped out. So I've included the program below: ------------------------------------------------------- #

Hi everybody, I've been looking for a function that combines all variables from a dataset because I need to do multivariate regression. If we have linear regression with an expression like f(x) = a0 + sum(ai*xi) what I want to do is something like f(x) = a0 + sum(ai*xi) + sum(sum(bij * xi * xj)) + sum(sum(sum(cijk*xi*xj*xk))) + ... So I need a function that combines all the values from

I evaluated the Bayes factor in the k=2 allele case with a "triangular" prior under the null as in the example in the help file: HWETriangBF2(nvec=c(88,10,2)) [1] 0.4580336 When I swap the n11 entry and n22 entry of nvec, I received totally different Bayes factor: > > HWETriangBF2(nvec=c(2,10,88)) [1] 5.710153 > In my understanding, defining the genotype frequency as