search for: weiwei

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 need a network builder and it can change the node size and color; I am not sure if network package in R can do this or not. The other functions I wanted have been found in that package. BTW, if there is another package in R relating to this, please suggest too. Thanks, Weiwei -- Weiwei Shi, Ph.D Research Scientist "Did you always know?" "No, I did not. But I believed..." ---Matrix III [[alternative HTML version deleted]]

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

...eply but i think the question is not that hard, probably i did not make the question clear: I want to find cases like 35, 90, 330, 330, 335 from the rest which look like 3, 3, 3, 3.2, 3.3 4, 4.4, 4.5, 4.6, 4.7 .... basically there is one (or more) big 'gap' in the case i seek. thanks, weiwei -- Weiwei Shi, Ph.D "Did you always know?" "No, I did not. But I believed..." ---Matrix III

...50 387000307470 NA 5551 387000307470 NA 5552 387000307470 NA I want to sum the column 3 by column 2. I removed NA by calling: tapply(z[[3]], z[[2]], sum, na.rm=T) but it does not work. then, i used z1<-z[!is.na(z[[3]],] and repeat still doesn't work. please help. -- Weiwei Shi, Ph.D "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

...;) I found it takes forever. then I run 1/10 of the data (test) using read.table again. And this time it finished quickly. So, there might be something wrong in my data format causing that problem. then, my question is, is there a way in R to track at which line, something wrong occurs? Thanks, Weiwei -- Weiwei Shi, Ph.D "Did you always know?" "No, I did not. But I believed..." ---Matrix III

...rpret 1. negative value 2. negative value less than -1. I also want to re-mention my previous question about how to evaluate the consistency of a set of variables and about the total correlation (my 2 cent to answer the question). Is there any function in R to do that? Thank you very much! -- Weiwei Shi, Ph.D Research Scientist GeneGO, Inc. "Did you always know?" "No, I did not. But I believed..." ---Matrix III

> From: Weiwei Shi > > it works. > thanks, > > but: (just curious) > why i tried previously and i got > > > is.vector(sample.size) > [1] TRUE Because a list is also a vector: > a <- c(list(1), list(2)) > a [[1]] [1] 1 [[2]] [1] 2 > is.vector(a) [1] TRUE > is.num...

...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, -- Weiwei Shi, Ph.D Research Scientist GeneGO, Inc. "Did you always know?" "No, I did not. But I believed..." ---Matrix III

...1.09501e-25 I understand the error message but I don't know how to trace down which variables caused this so that I can "sacrifice" them if there are not a lot. Again, not sure if it is due to some variables and not sure if dropping variables is a good idea either. Thanks for help, weiwei -- Weiwei Shi, Ph.D "Did you always know?" "No, I did not. But I believed..." ---Matrix III

...version since I need to use ttda package. > version _ platform x86_64-unknown-linux-gnu arch x86_64 os linux-gnu system x86_64, linux-gnu status major 2 minor 0.1 year 2004 month 11 day 15 language R My linux box has 8 G memory. Thank you for your help! Weiwei -- Weiwei Shi, Ph.D "Did you always know?" "No, I did not. But I believed..." ---Matrix III

...This is NOT CDA since the explanatory variables are NOT continuous. I knew the existence of that method since I consulted before with a professor but I forgot the name of the method.. sigh... I am also wondering if R has already some function or package addressing this kind of problem. Thanks -- Weiwei Shi, Ph.D "Did you always know?" "No, I did not. But I believed..." ---Matrix III [[alternative HTML version deleted]]

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..." ---Matrix III [[alternative HTML version deleted]]

...l, which means I have to find a way to "fill" those missings. One way is following my previous post to use median to replace(or use most freq. of level to replace for catergorical case), but I am wondering if there are other ways, when glm or something like it is concerned in R? Thanks, Weiwei -- Weiwei Shi, Ph.D "Did you always know?" "No, I did not. But I believed..." ---Matrix III [[alternative HTML version deleted]]

...e length as my training data. but if I use mg.rf<-randomForest(x=trn3[,1:208], y=trn3[,209], data=trn3, importance=T) followed by > mg.pred<-predict(mg.rf, newdata=val3[,1:208]) > length(mg.pred) [1] 7427 it works. But i need to know votes so I have to use the first way. Please help. Weiwei -- Weiwei Shi, Ph.D "Did you always know?" "No, I did not. But I believed..." ---Matrix III [[alternative HTML version deleted]]

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..." ---Matrix III

...-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 Shi, Ph.D Research Scientist GeneGO, Inc. "Did you always know?" "No, I did not. But I believed..." ---Matrix III

hi, if I have 20 x 3 data.frame, how to split it into 10 x 6 (moving the lower part of 10x3 to column) or 5 x 12 thanks -- Weiwei Shi, Ph.D Research Scientist GeneGO, Inc. "Did you always know?" "No, I did not. But I believed..." ---Matrix III

...ng method should be tested to get the best result. I think the key thing might be the selection of "distance" considering the next step in which I would like to use decision trees. Please share your experience in using clustering (Any available implementation outside R is also welcome) weiwei -- Weiwei Shi, Ph.D "Did you always know?" "No, I did not. But I believed..." ---Matrix III