similar to: how to split data.frame by row?

Hi, I searched the archives and did not find a good solution to that. assume I have 10 sets and I want to have the common character elements of them. how could i do that? -- Weiwei Shi, Ph.D Research Scientist GeneGO, Inc. "Did you always know?" "No, I did not. But I believed..." ---Matrix III

Hi, there: I am wondering if there is a quick way to "reverse" a list like this: t0 <- list(a=1, b=1, c=2, d=1) reverst t0 to t1 > t1 $`1` [1] "a" "b" "d" $`2` [1] "c" thanks. -- Weiwei Shi, Ph.D Research Scientist GeneGO, Inc. "Did you always know?" "No, I did not. But I believed..." ---Matrix III

Hi, I am wondering how to make a function Fun to make the following work: t0 <- (paste("hgu133a", "ENTREZID", sep="")) xx <- as.list(Fun(t0)) # make it work like xx<-as.list(hgu133aENTREZID) thanks, -- Weiwei Shi, Ph.D Research Scientist GeneGO, Inc. "Did you always know?" "No, I did not. But I believed..." ---Matrix III

hi, is there some good summary on clustering methods in R? It seems there are many packages involving it. And I have two questions on clustering here: 1. Is there a way of evaluate the effecitives (or seperation) of clustering (rather than by visualization)? 2. Is there a search method (like genetic search) which can help find the best subset of attributes which gives best seperation? Thanks,

Dear listers, a little off-topic: I am looking for and compare algorithms which can calculate "distance" or "similarity" between two gene lists with different lengths. Any paper, any implementation in R and any suggestion is welcome! Thanks, -- Weiwei Shi, Ph.D Research Scientist GeneGO, Inc. "Did you always know?" "No, I did not. But I believed..."

Hi, there: Assume I have a dataframe with rownames like A with rownames like a to e, > A [,1] [,2] a 1 6 b 2 7 c 3 8 d 4 9 e 5 10 when I use A[1,], I lost the rowname for it, like below. How could I keep it? Is there an easy way instead that I have to modify by myself after I used A[1,] manually. > A[1,] [1] 1 6 Thanks, W. -- Weiwei Shi, Ph.D Research

Hi, there: Suppose I have a couple of data.frames and each one has five columns (one for x-axis, two for y-axis and two for std of y's.) There is another dimensions (besides x and y) which is continuous. My question is, how to plot such series of data frames in one plot (thus, 3-dimensional plot) AND multiple 2-D plots. I am not familar with R's plotting utilities. Thanks. -- Weiwei

I get tables with millions of rows. For plotting to a screen-size jpg, obviously just about 1000 points are enough. Instead of feeding plot() the original millions of rows, I'd rather shrink the original dataframe, using some kind of the following interpolation: -- split dataframe into chunks of N rows each, e.g. 1000 rows each -- compute average for each column -- issue one new row

Hi, I am using dlda algorithm from supclust package and I am wondering if the output can be a continuous probability instead of discrete class label (zero or one) since it puts some restriction on convariance matrix, compared with lda, while the latter can. thanks, -- Weiwei Shi, Ph.D Research Scientist GeneGO, Inc. "Did you always know?" "No, I did not. But I believed..."

hi, i have a data frame like this: 0.3 0.7 0.4 0.8 i am trying to plot this data frame and each cell is filled with different colors based on the value. Is there a function which can do this? thanks, -- Weiwei Shi, Ph.D Research Scientist GeneGO, Inc. "Did you always know?" "No, I did not. But I believed..." ---Matrix III

Hi, I am trying to print out my confusion matrix after having created my random forest. I have put in this command: fit<-randomForest(MMS_ENABLED_HANDSET~.,data=dat,ntree=500,mtry=14, na.action=na.omit,confusion=TRUE) but I can't get it to give me the confusion matrix, anyone know how this works? Thansk! Ruben [[alternative HTML version deleted]]

Dear Listers: I have a couple of data frames to report and each corresponds to different condtions, e.g. conditions=c(10, 15, 20, 25). In this examples, four data frames need to be exported in a "pretty" report. I knew Perl has some module for exporting data to Excel and after googling, I found R does not. So I am wondering if there is a package in R for generating good reports. I

Dear Listers: For example, if I have a .R source file which has more than one function, and I want to just load only one of the functions, how could I do that? (removing the rest after sourcing is not what I intend b/c in my workspace, I might have some of the rest and I don't want to change my workspace: i.e., I only change my workspace by adding one function from a R source file). Thanks,

Dear all, (Mac OS X 10.4.11, R 2.6.0) I have a quantitative dataset with a lot of Na?s in it. So many, that it is not possible to delete all rows with NA?s and also not possible, to delete all variables with NA?s. Is there a function for a principal component analysis, that can deal with so many NA?s. Thanks in advance Birgit Birgit Lemcke Institut f?r Systematische Botanik

Dear all, I have a question on Cohen's kappa: Assume I have two datasets, one has 500 objects, 10 methods and the other, 1000 different objects, 20 different methods. Could I compare between the two datasets to conclude the 10 methods are more "concordant" than the 20 ones by looking at some output, for example, cohen.kappa{concord} ? One more, could anyone explain in brief,

Dear R-user; I recently switched from PC to MAC. Is there a compatible editor as Win-editor with package RWinEdit for MAC? Thanks Yihsu Chen [[alternative HTML version deleted]]

Full_Name: Jori M?ntysalo Version: 2.3.1 OS: Linux, GNU/Debian stable Submission from: (NULL) (81.197.171.182) I said ./configure --with-readline=no --with-x=no make make install and everything works except that /usr/local/lib/R/etc/ldpaths was not readable as normal user.

Hi, I am a new student to R and I was hoping someone could help me with the error message I keep getting when I try to use the nb2listw() function. I have 45 sites and I want to get an autocorrelation value for sites within 1000m of each other. coords<-cbind(EAST,NORTH) coords<-as.matrix(coords) nb1000<-dnearneigh(coords,0,1000,longlat=TRUE) then when I try to run the

Hi everyone, I have a matrix that contains 1000 replicates of a sample of a list of values. I want to group each row (row=replicate) into my defined bin ranges and then calculate the mean and stdev for each of the bin ranges (so I will have 1000 rows but ncol=number of bin ranges). I don't know how to group rows in a matrix matrix according to another vector (which is what I think I need to

Dear R user, I am using Sweave to write my reports with R code. Unlucly my code take a lot of time to run, and I don't want to run it multiple time, if possible, as I am still developping the tools. It seems that a sweave run does not save the enviroment at the end of the process, is there a way to avoid to lunch multiple time the same commands? maybe it could be possible to store chunck of