Re: [R] plotting multiple variables in 1 bar graph

2012-10-24 Thread PIKAL Petr
Hi see in line -Original Message- From: r-help-boun...@r-project.org [mailto:r-help-bounces@r- project.org] On Behalf Of David Carlson Sent: Tuesday, October 23, 2012 6:47 PM To: 'Macy Anonuevo'; r-help@r-project.org Subject: Re: [R] plotting multiple variables in 1 bar graph

Re: [R] repeat takes along time

2012-10-24 Thread PIKAL Petr
Hi Hi I want help for repeat because it takes a long time repeat{ for (i in 1:n){ probb[i]=sum(Wc[z[,j]=yb[i]]) } deltab[,b]=rbinom(n,1,probb) if(length(which(is.na(deltab[,b])==T))==0){break} } This code works but takes much computation time. What is this code supposed to do?

[R] List of multidimensional arrays

2012-10-24 Thread Loukia Spineli
Dear all, I am trying to create a list, where each list element is a vector of different length arrays that contain 2by2 matrices. To be more specific there are 11 treatments that are compared with placebo (we have 11 comparisons) and each comparison is studied by a different number of trials and

Re: [R] Understanding lattice barchart() display

2012-10-24 Thread Peter Ehlers
On 2012-10-23 15:39, Rich Shepard wrote: On Tue, 23 Oct 2012, Bert Gunter wrote: I believe you are misunderstanding what a barchart is (or maybe I do, since I never use 'em). I believe that there should be one quant value for each tclass and stream, and you have several. Bert, My first

[R] Results not dispalying in R console

2012-10-24 Thread arunkumar1111
Hi I'm not getting any results in R console when i run commands. I reinstalled R but the results are same - Thanks in Advance Arun -- View this message in context: http://r.789695.n4.nabble.com/Results-not-dispalying-in-R-console-tp4647271.html Sent from the R help mailing list

Re: [R] Export summary from regression output

2012-10-24 Thread arun
HI, May be this helps: ctl - c(4.17,5.58,5.18,6.11,4.50,4.61,5.17,4.53,5.33,5.14)   trt - c(4.81,4.17,4.41,3.59,5.87,3.83,6.03,4.89,4.32,4.69)   group - gl(2,10,20, labels=c(Ctl,Trt))   weight - c(ctl, trt)   lm.D9 - lm(weight ~ group) fun1-function(x){

Re: [R] incomplete final line found by readTableHeader

2012-10-24 Thread Shane2012
Thanks, JeffThis is from a course, but the course is just needed to take some slides for presentation. I just learn R by myself, and want this skill more practical. So I try to use the innovative way to perform a more professional presentation.hence, no worry about the homework support issue.

Re: [R] How to use tapply with more than one variables grouped

2012-10-24 Thread arun
Hi, Just a modification of David's method: apply(dat1,2,function(x) names(which.max(x[!is.na(x)]))==Obama) #   AL    AR    CA    NY #FALSE FALSE  TRUE  TRUE names(dat1)[apply(dat1,2,function(x) names(which.max(x[!is.na(x)]))==Obama)] #[1] CA NY A.K. - Original Message - From:

[R] Z score

2012-10-24 Thread Vedant Sharma
Hi, I need to find the z-score of the data present in a speardsheet. The values needs to be calculated for each gene across the samples (refer the example). And, it should be a simple thing, but I am unable to do it right now ! The example re the structure of the spreadsheet is - # Example:

[R] R untar error

2012-10-24 Thread zhaohu44
Hi, When I use untar command and I got an error. untar(/public03/ara_gse_raw_data/GSE26679_RAW.tar,exdir=/public03/data/arabidopsis_data/GSE26679_RAW) sh: /tmp/RtmpzQGJvh/file5f09b232: No such file or directory I want to know how to solve this problem. Thanks very much for any tips.

Re: [R] ROC with more than one predictor

2012-10-24 Thread Suzen, Mehmet
On Tue, Oct 23, 2012 at 11:52 PM, Luigi marongiu.lu...@gmail.com wrote: Any tip on how to proceed? You may want to do check rocplus package. Its vignette is pretty good. http://cran.r-project.org/web/packages/rocplus/vignettes/rocplus.pdf In your case, I think pairwise comparison would be one

Re: [R] Changing radii line type in radial plots

2012-10-24 Thread Peter Ehlers
On 2012-10-23 15:22, bwone wrote: Hello all, Is it possible to change the radii line type in radial plots? I wasn't able to find anything online. Do please be more specific: which package's radial plot function are you using? Package plotrix has radial.plot() with an 'lty' argument. Peter

Re: [R] List of multidimensional arrays

2012-10-24 Thread David Winsemius
On Oct 23, 2012, at 11:36 PM, Loukia Spineli wrote: Dear all, I am trying to create a list, where each list element is a vector of different length arrays that contain 2by2 matrices. To be more specific there are 11 treatments that are compared with placebo (we have 11 comparisons) and

Re: [R] Results not dispalying in R console

2012-10-24 Thread Pascal Oettli
Hello, And what do you expect from us, without example? Regards, Pascal Le 12/10/24 15:44, arunkumar a écrit : Hi I'm not getting any results in R console when i run commands. I reinstalled R but the results are same - Thanks in Advance Arun -- View this message in

Re: [R] R untar error

2012-10-24 Thread David Winsemius
On Oct 23, 2012, at 7:43 PM, zhaohu44 wrote: Hi, When I use untar command and I got an error. untar(/public03/ara_gse_raw_data/GSE26679_RAW.tar,exdir=/public03/data/arabidopsis_data/GSE26679_RAW) sh: /tmp/RtmpzQGJvh/file5f09b232: No such file or directory I want to know how to solve

Re: [R] Results not dispalying in R console

2012-10-24 Thread Jeff Newmiller
wow. That sounds like a problem. For a more constructive response, read the posting guide and post specific examples and explain how the output you get is not what you expect. Also, the output of sessionInfo() is likely to be helpful, and if you use a Mac, or Debian/other Linux, one of the

Re: [R] List of multidimensional arrays

2012-10-24 Thread Loukia Spineli
You are absolutely right. I read the guidelines! Mistake to attach 'word' file! The comfort is that at least I got an A :). I revise my question approapriately! On Wed, Oct 24, 2012 at 10:36 AM, David Winsemius dwinsem...@comcast.netwrote: On Oct 23, 2012, at 11:36 PM, Loukia Spineli wrote:

[R] List of multidimensional arrays

2012-10-24 Thread Loukia Spineli
Dear all, I am trying to create a list, where each list element is a vector of different length arrays that contain 2by2 matrices. To be more specific there are 11 treatments that are compared with placebo (we have 11 comparisons) and each comparison is studied by a different number of trials and

Re: [R] incomplete final line found by readTableHeader

2012-10-24 Thread Milan Bouchet-Valat
Le mardi 23 octobre 2012 à 20:36 -0700, Shane2012 a écrit : Thanks, Jeff This is from a course, but the course is just needed to take some slides for presentation. I just learn R by myself, and want this skill more practical. So I try to use the innovative way to perform a more professional

[R] R5: Lock a class field from within a method?

2012-10-24 Thread Johannes Graumann
Hello, testclass - setRefClass( testclass, fields = list(testfield = logical), methods = list(validate=function(){testfield-TRUE})) test - testclass$new() test$testfield logical(0) test$validate() test$testfield [1] TRUE Works just fine for me. I would love to be able to do something

Re: [R] plotting multiple variables in 1 bar graph

2012-10-24 Thread Jim Lemon
On 10/23/2012 07:22 PM, Macy Anonuevo wrote: I'd greatly appreciate your help in making a bar graph with multiple variables plotted on it. All the help sites I've seen so far only plot 1 variable on the y-axis Data set: I have 6 sites, each measured 5 times over the past year. During each

Re: [R] SEM multigroup modeling

2012-10-24 Thread John Fox
Dear Maya, You and I corresponded about this problem yesterday, so I'll respond on the r-help list only briefly: On Tue, 23 Oct 2012 23:12:23 +0300 Maya Abou Zeid ma...@aub.edu.lb wrote: Hello, I am using the SEM package in R to fit a multigroup latent variable model and ran into some

Re: [R] Z score

2012-10-24 Thread Rui Barradas
Hello, Try the following. apply(MyFile, 1, scale) Hope this helps, Rui Barradas Em 24-10-2012 07:17, Vedant Sharma escreveu: Hi, I need to find the z-score of the data present in a speardsheet. The values needs to be calculated for each gene across the samples (refer the example). And, it

Re: [R] barplot

2012-10-24 Thread Jim Lemon
On 10/24/2012 03:21 AM, Thiho Jules wrote: Hi, I want to make a barplot with the following datasets: I have a file as following: name chr position A1 A2 pop1 pop1 pop2 pop2 I have calculated a measure using all the values in columns pops, the values are saved in a vector. Now I want to

Re: [R] Z score

2012-10-24 Thread arun
Hi, Try this:  res-do.call(rbind,lapply(lapply(apply(MyFile,1,function(x) x[!is.na(x)]),function(x) (x-mean(x))/sd(x)),function(x) x[c(Sample_1,Sample_2,Sample_3)]))  res # Sample_1   Sample_2   Sample_3 #Gene_1  0.4931970 -1.1507929  0.6575959 #Gene_2  1.1421818 -0.7179429 -0.4242390

Re: [R] Z score

2012-10-24 Thread arun
Hi, In cases, with more sample columns, you could also use this:  res2-t(sapply(lapply(apply(MyFile,1,function(x) x[!is.na(x)]),function(x) (x-mean(x))/sd(x)),function(x) x[colnames(MyFile)] )) res2  #    Sample_1   Sample_2   Sample_3 #Gene_1  0.4931970 -1.1507929  0.6575959 #Gene_2 

Re: [R] factor or character

2012-10-24 Thread Rui Barradas
Hello, Sorry but, what doesn't work? What is the error message or result? As for stringsAsFactors not keeping character strings as character strings maybe this is from calling data.frame from within the environment used by with(), but you can use other ways of converting to character strings,

[R] Five cases of the Multivariate VECM

2012-10-24 Thread 敷田治誠 クラウジオ
Hello, I was studying several packages related to time series analysis (urca, vars, tseries). I understand that we can estimate a VECM and also test restrictions on alphas and betas. However, I couldn't find a function that allows me to specify the five cases of VECM (restricted constant,

[R] recursive function on a structured list of lists (dendrogram)

2012-10-24 Thread Ivan Alves
Dear all, I have been trying the following without avail and would be very grateful for any help. From a dendrogram (recursive list of lists with some structure), I would like to obtain some information of the component lists and of the enclosing list at the same time. In dendrogram-speech I

Re: [R] After sorting a dataframe by date

2012-10-24 Thread martiny
Ai...I see, i didn't know I can sort rowname. more study to do :) cheers, martin -- View this message in context: http://r.789695.n4.nabble.com/After-sorting-a-dataframe-by-date-tp4647173p4647291.html Sent from the R help mailing list archive at Nabble.com.

Re: [R] Results not dispalying in R console

2012-10-24 Thread Rolf Turner
On 24/10/12 19:44, arunkumar wrote: Hi I'm not getting any results in R console when i run commands. I reinstalled R but the results are same. I *suspect* that you are displaying the results inside some sort of function (e.g. a for loop, or source() ) whence the results are invisible

[R] equation solver

2012-10-24 Thread pina
Hi, I'm Pina and I'm a student in geology. I'm working with spectral profile of sand and I have to find the similarity between one spectral profile selected by hyperspectral image anche one that I created to mix different percentage of 4 mineral component. I have to find the best mix of

Re: [R] repeat takes along time

2012-10-24 Thread JPM
Hi Petr Thanks for reply. On 24 October 2012 07:26, PIKAL Petr [via R] ml-node+s789695n464726...@n4.nabble.com wrote: Hi It is a piece of my code. At this, i create a matrix(deltab) with each column is a binomial, but in there are several NAs, and i must restart the cycle the number of

[R] Recode function car package erases previous values

2012-10-24 Thread Pancho Mulongeni
Hi all, I am attempting to create a new variable based on values of other variables. The variable is called pharm. It basically takes the numeric code of 1 as yes and 0 to be No from the variable B20_C1 (a question on a survey). However, I would also like to have a level for non-respondents and

Re: [R] factor or character

2012-10-24 Thread Silvano Cesar da Costa
Hi, still doesn't work. Hello, I've just seen the error, you are _not_ searching for colnames in mod5.sig$snps. Corrected: Selec = todos[ , colnames(todos) %in% mod5.sig$snps] Hope this helps, Rui Barradas Em 23-10-2012 21:17, Silvano Cesar da Costa escreveu: Hi Rui, it doesn't

Re: [R] bugs and misfeatures in polr(MASS).... fixed!

2012-10-24 Thread tjb
Sorry, I have been away. I'll have a look at this and get back to you tomorrow. Tim On Thu, Oct 18, 2012 at 10:35 PM, ahs [via R] ml-node+s789695n4646600...@n4.nabble.com wrote: Hello, I am trying to use this fix for the convergence problem in polr, but I don't seem to get the change of

Re: [R] equation solver

2012-10-24 Thread Berend Hasselman
On 24-10-2012, at 10:04, pina pina@hotmail.it wrote: Hi, I'm Pina and I'm a student in geology. I'm working with spectral profile of sand and I have to find the similarity between one spectral profile selected by hyperspectral image anche one that I created to mix different percentage

Re: [R] multi-panel figure: overall title for each row

2012-10-24 Thread Jean V Adams
Hannes, A bit inelegant, but it works. Try this: mtext(Overall Title Row 2, outer=TRUE, line=-17) mtext(Overall Title Row 3, outer=TRUE, line=-34) Jean capy_bara hettl...@few.vu.nl wrote on 10/23/2012 09:08:39 AM: Dear all, I have a 3x2 plot and in addition to the title of the

Re: [R] Understanding lattice barchart() display

2012-10-24 Thread Rich Shepard
On Tue, 23 Oct 2012, Peter Ehlers wrote: As Bert correctly points out, you have more than one quant value per tclass/stream combination. You need to summarize your 1987-case data.frame to a 56-case data.frame (8 levels of tclass and 7 levels of stream). The easy way to do that is: benthos2 -

Re: [R] Recode function car package erases previous values

2012-10-24 Thread arun
Hi, May be this helps: set.seed(1) dat1-data.frame(B20_C1=c(NA,sample(0:1,4,replace=TRUE),NA),B20_C2=c(NA,sample(0:1,3,replace=TRUE),sample(0:1,2,replace=TRUE)),nrB20C=c(1,NA,NA,NA,NA,NA)) dat1 #  B20_C1 B20_C2 nrB20C #1 NA NA  1 #2  0  0 NA #3  0  1 NA #4 

Re: [R] Results not dispalying in R console

2012-10-24 Thread Bert Gunter
I **think** he is saying that he is not getting anything at all back on the console. If so, he needs to *follow the posting guide* and tell us what OS and setup he is using and **exactly** what is meant by the R console (GUI, command line, ...?) . Your last suggestion to post elsewhere may also be

Re: [R] Recode function car package erases previous values

2012-10-24 Thread Pancho Mulongeni
-Original Message- From: arun [mailto:smartpink...@yahoo.com] Sent: Wednesday, October 24, 2012 3:31 PM To: Pancho Mulongeni Cc: R help Subject: Re: [R] Recode function car package erases previous values Hi, May be this helps: set.seed(1)

[R] for ( i in 23:0 ) { V - vector [ 1 : i ] }

2012-10-24 Thread colaiutachambers
I'm used to run that on Matlab for indice=1:23, V=vector(1:indice) end that give me 23 vectors as output. Why the same command on R for ( i in 23:0 ) { V - vector [ 1 : i ] } returns one only vector? How can I obtain the 23 vectors that I need ? Thank you. -- View this message in

Re: [R] bugs and misfeatures in polr(MASS).... fixed!

2012-10-24 Thread ahs
Great! You can skip my question about s0 though, I found where it is being used, but I still struggle with the code and convergence problem. I also found something here http://biostat.mc.vanderbilt.edu/wiki/pub/Main/CharlesDupontStuff/newPolr.R that seems like someone tried to fix it, but with

Re: [R] Interper output from cajorls and VECM

2012-10-24 Thread Laura Catalina Echeverri
Hello Rmillan, I was looking for the same issue and I found that the variables ECT1, ECT2... are the loading matrix, as you can check in the example of the paper found at http://cran.r-project.org/web/packages/vars/vignettes/vars.pdf http://cran.r-project.org/web/packages/vars/vignettes/vars.pdf

Re: [R] multi-panel figure: overall title for each row

2012-10-24 Thread Bert Gunter
A perhaps more elegant way to do it would be to use the ?layout function rather than the ancient mfrow() to create space for both titles and graphs. You could then e.g. draw your titles in the space you created for titles. -- Bert On Wed, Oct 24, 2012 at 5:33 AM, Jean V Adams jvad...@usgs.gov

Re: [R] for ( i in 23:0 ) { V - vector [ 1 : i ] }

2012-10-24 Thread Bert Gunter
Quoting Rolf Turner: (1) Learn something about R; don't just hammer and hope. Read the introductory manuals and scan the FAQ. -- Bert On Wed, Oct 24, 2012 at 5:25 AM, colaiutachambers gabriele.carrar...@gmail.com wrote: I'm used to run that on Matlab for indice=1:23, V=vector(1:indice) end

Re: [R] List of multidimensional arrays

2012-10-24 Thread Richard M. Heiberger
I am looking at your pdf file. it doesn't match your description. There are no missing values in the vectors x, y, t. Each vector has length 55 which is not a multiple of 4, so we don't know where the 2x2 matrices come from. The code doesn't run. There are are too many }. PDF files are

Re: [R] Recode function car package erases previous values

2012-10-24 Thread arun
Hi Pancho, I tried ur method: pharm-as.factor(recode(dat1$B20_C1,1='Yes';0='No'))  pharm #[1] NA No   No   Yes  Yes  NA #Levels: No Yes pharm[dat1$nrB20C==1]-'no resp' #Warning message: #In `[-.factor`(`*tmp*`, dat1$nr.B20C == 1, value = no resp) :  # invalid factor level, NAs generated  pharm

Re: [R] find similarity between two spectral profile

2012-10-24 Thread Bart Joosen
If you provide some data we can work with (a reproducible example), then we can help you. Now we can only guess? -- View this message in context: http://r.789695.n4.nabble.com/find-similarity-between-two-spectral-profile-tp4647157p4647319.html Sent from the R help mailing list archive at

Re: [R] Recode function car package erases previous values

2012-10-24 Thread Pancho Mulongeni
Hi Arun, I also used to get that error, but what class is your nr.B20C, mine is not a factor, it is numeric and perhaps that's why it works -Original Message- From: arun [mailto:smartpink...@yahoo.com] Sent: Wednesday, October 24, 2012 4:35 PM To: Pancho Mulongeni Cc: R help Subject:

Re: [R] R5: Lock a class field from within a method?

2012-10-24 Thread David Winsemius
On Oct 24, 2012, at 2:14 AM, Johannes Graumann wrote: Hello, testclass - setRefClass( testclass, fields = list(testfield = logical), methods = list(validate=function(){testfield-TRUE})) test - testclass$new() test$testfield logical(0) test$validate() test$testfield [1] TRUE Works

Re: [R] After sorting a dataframe by date

2012-10-24 Thread David Winsemius
On Oct 24, 2012, at 2:27 AM, martiny wrote: Ai...I see, i didn't know I can sort rowname. more study to do :) You deleted the context of this thread, but while you are looking at the rownames documentation you might also keep your eyes open for the zoo and xts packages which could

Re: [R] plotting multiple variables in 1 bar graph

2012-10-24 Thread S Ellison
I'd greatly appreciate your help in making a bar graph with multiple variables plotted on it. All the help sites I've seen so far only plot 1 variable on the y-axis ... I've spent several hours looking for code to do this but didn't find anything. I'd use the Excel graph except that it

Re: [R] rJava install - %1 is not a valid Win32 application.

2012-10-24 Thread David Stevens
Hello all. Steven's approach didn't work for me. I'm running 64 bit R R.Version() $platform [1] x86_64-pc-mingw32 $arch [1] x86_64 $os [1] mingw32 $system [1] x86_64, mingw32 and downloaded and installed the 64 bit version of Java directly from Oracle. I then tried to load the rJava

Re: [R] Summary of variables with NA, empty

2012-10-24 Thread Lopez, Dan
The examples I gave--Null, Empty string, white space, etc where just examples based on SPSS Modeler's Data Audit node. I just want something that both identifies the columns having missing values-- regardless of what they technically are stored as(NA or a field with space bar hit a couple of

Re: [R] Recode function car package erases previous values

2012-10-24 Thread John Fox
Dear Pancho, I'm not going to respond to the subsequent messages in this thread, since you appear to have solved your problem, just explain that what you did originally was to recode the variable B20_C1, creating the new variable pharm. Then you recoded another variable, nr.B20C, replacing the

Re: [R] [r] How to pick colums from a ragged array?

2012-10-24 Thread arun
HI Stuart, Just a doubt: When I run Rui's function: I got results as: g.rr[rep(!duplicated(g.rr)[(1:(dim(g.rr)[1]/2))*2],each=2),] # ID DATE DG #22  841 20050421  1 #23  841 20050421  2 #38 1019 19870508  2 #39 1019 19870508  1 But, when I look at the id.d 16  814 20020814  2 17  814

Re: [R] help using optim function

2012-10-24 Thread Ben Bolker
tmuman mumantariq at gmail.com writes: Hi, am very new to R and I've written an optim function, but can't get it to work least.squares.fitter-function(start.params,gr, low.constraints,high.constraints,model.one.stepper,data,scale,ploton=F) { result-optim(par=start.params,

Re: [R] for ( i in 23:0 ) { V - vector [ 1 : i ] }

2012-10-24 Thread Rui Barradas
Hello, Try the following. lapply(1:23, function(i) 1:i) As for why yuor code doesn't work, you're assigning 24 times a value to V, on loop exit only the last one is there. A correct way using loops would be V - list() for(i in 1:23) V[[i]] - 1:i Beware that the last vector goes from

Re: [R] [r] How to pick colums from a ragged array?

2012-10-24 Thread arun
Hi, With the dataset that you provided, and considering that my solution works (ID  323 included), the below code outputs a variable INCLUDE. res1- data.frame(flag=tapply(id.d[,2],id.d[,1],FUN=function(x)

Re: [R] parsing a structured object

2012-10-24 Thread BenM
That's simple and appears to work. Thanks for the prompt response. Ben -- View this message in context: http://r.789695.n4.nabble.com/parsing-a-structured-object-tp4647246p4647334.html Sent from the R help mailing list archive at Nabble.com. __

Re: [R] ifelse reformulation

2012-10-24 Thread arun
Hi, Try this: test1-read.table(text=    id x1 x2 x3 x4 x5 x6 x7 1   1 36 26 21 32 31 27 31 2   2 45 21 46 50 22 36 29 3   3 49 47 35 44 33 31 46 4   4 42 32 38 28 39 45 32 5   5 29 42 39 48 25 35 34 6   6 39 31 30 37 46 43 44 7   7 41 40 25 23 42 40 24 8   8 27 29 47 34 26 38 28 9   9

[R] how to get underlying values being plotted in garchfit predict plot

2012-10-24 Thread Kulkarni, Miheer
Hello, I have a time series of 500 returns. I am fitting a garch(1,1) model to this series using fit - garchFit(~garch(1,2), data=y) Then I run: predict(fit,n.ahead=100,plot=TRUE) To get the plot. My question, how can I access the data that is being plotted with the black line. Basically I

Re: [R] [r] How to pick colums from a ragged array?

2012-10-24 Thread Rui Barradas
Hello, Using one of Arun's ideas, some post ago, this new function returns a logical index into id.d of the rows that should be _removed_, hence rm1 and rm2. I think getRepLogical - function(x, first = TRUE){ fun - if(first) head else tail dte - tapply(x[,2], x[,1], FUN =

Re: [R] daylight

2012-10-24 Thread Greg Snow
Do you care about local topography/terrain? I think most of the calculators/tables that are commonly used assume that you are at a fairly flat place on the earth's surface, but that is not always true. The area where my wife grew up had its longest day closer to the equinox than the summer

Re: [R] [r] How to pick colums from a ragged array?

2012-10-24 Thread arun
Hi Rui, I think now our results are matching except in the INCLUDE column id.d[c(11:13,22:24,38:40),] # ID DATE DG INCLUDE #11  323 20080407  1    TRUE #12  323 20080521  2   FALSE #13  323 20080521  3    TRUE #22  841 20050421  1    TRUE #23  841 20050421  2   FALSE #24  841 20060428 

Re: [R] Summary of variables with NA, empty

2012-10-24 Thread David Winsemius
On Oct 24, 2012, at 8:32 AM, Lopez, Dan wrote: The examples I gave--Null, Empty string, white space, etc where just examples based on SPSS Modeler's Data Audit node. I just want something that both identifies the columns having missing values-- regardless of what they technically are

Re: [R] [r] How to pick colums from a ragged array?

2012-10-24 Thread Rui Barradas
Hello, I just realized that function getRepLogical marks the second, not the first (eventually from last) to be removed. The first tapply should be dte - tapply(x[,2], x[,1], FUN = function(x) duplicated(fun(x, 2), fromLast = TRUE)) in order to remove the first (or last). Rui Barradas

Re: [R] [r] How to pick colums from a ragged array?

2012-10-24 Thread Rui Barradas
Hello, Inline. Em 24-10-2012 19:05, arun escreveu: Hi Rui, I think now our results are matching except in the INCLUDE column id.d[c(11:13,22:24,38:40),] # ID DATE DG INCLUDE #11 323 20080407 1TRUE #12 323 20080521 2 FALSE #13 323 20080521 3TRUE #22 841 20050421 1

Re: [R] Changing radii line type in radial plots

2012-10-24 Thread bwone
I am using the package plotrix radial.plot(). Yes, radial.plot() has a line type argument, lty, but that is for the polygons or the radial lines, not the radii or axes of the radial plot.unless I am doing something wrong. Thanks! -- View this message in context:

Re: [R] [r] How to pick colums from a ragged array?

2012-10-24 Thread arun
HI Stuart, Just a small comment: id.d1$id.d_INCLUDE-TRUE #is not needed. res1- data.frame(flag=tapply(id.d[,2],id.d[,1],FUN=function(x) head(duplicated(x)|duplicated(x,fromLast=TRUE),1)|tail(duplicated(x)|duplicated(x,fromLast=TRUE),1)))

[R] randomly select another observation with same grouping factor and year value, do for every record in dataframe

2012-10-24 Thread Meredith, Christy S -FS
Hello, I am trying to create a function that will move through each record of a data frame, find the value in the HUC column, then randomly select another observation from the dataframe with the same value in HUC column, as well as the same value in Yr column as the first observation. I want

Re: [R] [r] How to pick colums from a ragged array?

2012-10-24 Thread arun
Hi,  According to the OP So the function should only exclude an ID, having identified a first (or last) DATE duplicate, the DGs for these two dates are different. Rui: By running your modified function (using dte - tapply(x[,2], x[,1], FUN = function(x) duplicated(fun(x, 2),fromLast = TRUE))),

[R] Testing proportional odds assumption in R

2012-10-24 Thread Thomas Yee
Hi, M1 and M2 are extreme in that all or none of the variables have parallel lines on the logit scale. One can try fitting a partial POM, which remains fraught (but not as much as M2) because if the lines intersect for a particular variable where the data lie then there will be numerical

Re: [R] Recode function car package erases previous values

2012-10-24 Thread arun
Hi, I think the as.factor in ur code created trouble. library(car) pharm-as.factor(recode(B20_C1,1='Yes';0='No'))   pharm-recode(dat1$B20_C1,1='Yes';0='No')  pharm[dat1$nrB20C==1]-no resp pharm #[1] no resp No  No  Yes Yes NA    table(pharm) #pharm   #  

Re: [R] Assigning values to several consecutives rows in a sequence while leaving some empty

2012-10-24 Thread nymphita
Thank you very much Michael and Berend for your ideas and feddback. I apologize for my mistakes. It's true that I still have much to learn (and I sometimes forget what I read). I'll surely use the dput() command next time I post something and I'll try to be more clear with my questions too.

[R] Kaplan Meier Post Hoc?

2012-10-24 Thread Charles Determan Jr
This is more of a general question without data. After doing 'survdiff', from the 'survival' package, on strata including four groups (so 4 curves on a Kaplan Meier curve) you get a chi squared p-value whether to reject the null hypothesis or not. Is there a method to followup with pairwise

Re: [R] [r] How to pick colums from a ragged array?

2012-10-24 Thread Stuart Leask
I mis-typed, missing an if. I think you've got it, but let me try again: The function should: - put FALSE in a column for every instance of an ID IF ( that ID has a first (or last) DATE duplicated ) AND IF (the DGs for the duplicated dates are different). So for the earliest/first date

Re: [R] [r] How to pick colums from a ragged array?

2012-10-24 Thread Rui Barradas
Hello, Inline. Em 24-10-2012 22:40, Stuart Leask escreveu: I mis-typed, missing an if. I think you've got it, but let me try again: The function should: - put FALSE in a column for every instance of an ID IF ( that ID has a first (or last) DATE duplicated ) AND IF (the DGs for the duplicated

Re: [R] Kaplan Meier Post Hoc?

2012-10-24 Thread Marc Schwartz
On Oct 24, 2012, at 4:33 PM, Charles Determan Jr deter...@umn.edu wrote: This is more of a general question without data. After doing 'survdiff', from the 'survival' package, on strata including four groups (so 4 curves on a Kaplan Meier curve) you get a chi squared p-value whether to reject

[R] Defining categories

2012-10-24 Thread bibek sharma
Hello R user, Data below represent year in decimal. I would like to catagorize it in such a way that any valye [0,1] goes to catagory 1 , (1,2] goes to catagory 2 and so on.. Any suggestion how it can be done with if else statement or any other way? 2.880556 0.616667 5.08 0.858333 0.47

Re: [R] Defining categories

2012-10-24 Thread arun
Hi, May be this: dat1-read.table(text= 2.880556 0.616667 5.08 0.858333 0.47 2.936111 4.258333 0.258333 2.03 2.58 1.09 0.447222 1.87 0.080556 4.03 4.116667 1.63 2.147222 ,sep=,header=FALSE) dat1$category-ifelse(dat1$V1=1 dat1$V10,1,ifelse(dat1$V11

Re: [R] Defining categories

2012-10-24 Thread Jorge I Velez
See ?cut for a simpler way of doing this. HTH, Jorge.- On Thu, Oct 25, 2012 at 10:02 AM, arun wrote: Hi, May be this: dat1-read.table(text= 2.880556 0.616667 5.08 0.858333 0.47 2.936111 4.258333 0.258333 2.03 2.58 1.09 0.447222 1.87 0.080556 4.03

[R] extracting variance co variance matrix from system package

2012-10-24 Thread Dereje Bacha
I run system of equations. The system package gives variance covariance matrix for each equation. I want to extract the variance covariance matrix (of the coefficients) for each equation. How do we extract it?. Y1~X1+X2 Y2~X1+X2 fit.ols-system (system, ols, data)……. To extract it I wrote as

Re: [R] Z score

2012-10-24 Thread arun
Hi Ved, Sorry, I didn't test it well enough at that time.  In your example file,  #there were NAs MyFile1 - read.csv( text= Names,'Sample_1','Sample_2','Sample_3' Gene_1,87,77,88 Gene_2,98,22,34 Gene_3,33,43,33 Gene_4,78,,81 , header=TRUE, row.names=1, as.is=TRUE, quote=', na.strings= )

Re: [R] Defining categories

2012-10-24 Thread arun
Hi,  (Jorge: Thanks for the suggestion.) cut? will be much easier. dat1-read.table(text= 2.880556 0.616667 5.08 0.858333 0.47 2.936111 4.258333 0.258333 2.03 2.58 1.09 0.447222 1.87 0.080556 4.03 4.116667 1.63 2.147222 ,sep=,header=FALSE)  

Re: [R] Changing radii line type in radial plots

2012-10-24 Thread Peter Ehlers
On 2012-10-24 11:06, bwone wrote: I am using the package plotrix radial.plot(). Yes, radial.plot() has a line type argument, lty, but that is for the polygons or the radial lines, not the radii or axes of the radial plot.unless I am doing something wrong. Thanks! First, even if you must