Re: [R] Cholesky decomposition error

2012-06-15 Thread nataraj
Thanks for your reply. To my surprise I can find one more strange behavior of my 15X15 matrix A, that is if I call the function chol(A) in the terminal it decompose the matrix fine without any errors or warnings. But if I call the function chol() within a function, which I have written in

[R] Using Sub

2012-06-15 Thread Lopez, Dan
Hi, I have been trying to get the sub function to work but can't for the life of me figure it out. I tried looking at ?sub but I think there is something that I am just not understanding. Example failed attempts sub(\\,/,G:\Compensation Audits_Reports\Step Audit\Steps off Step.accdb) Error:

Re: [R] gWidgets - gtable returning multiple values

2012-06-15 Thread michaelyb
To whoever is looking for the same thing as I was, I found a solution, or sort of. Here is the code: flavors-c(vanilla, chocolate, strawberry) w - gwindow(checkbox example) gp - ggroup(container=w) glabel(Favorite flavors:,cont=gp) cbg - gtable(flavors, cont=gp, multiple=T) # Here is the

[R] Customizing a Plot in Correspondence Analysis

2012-06-15 Thread Salvador Ramirez
Hello, Using the Correspondence Analysis package (ca), I wonder if there is a way to further customize the plot beyond the options given in plot.ca provided by the mentioned package. The correspondence analysis I am doing consists of two datasets sharing only the rows, so the plot draw the total

[R] POSIXlt and trunc

2012-06-15 Thread James Long
Hi, I'm having trouble understanding how trunc is operating on vectors of POSIXlt objects. Why does dates[1:4] in the last line return a bunch of NAs even though dates look like it has all the right elements? This worries me that something is off with my use of trunc. Is trunc not suppose to be

[R] decomposing decompose(), issue?

2012-06-15 Thread Peter L
Hi I'm just stepping through the decompose() function, in stats. Does this contained line of code not work if you have a time series ending unevenly (i.e., middle of the year), or am I missing something? season - na.omit(c(as.numeric(window(season, start(x) + c(1, 0), end(x))),

[R] Syntax for nls optimization function

2012-06-15 Thread HC
I am working on minimization of sum of squared errors for a problem that has 2 box-constrained parameters. I got the solution for this problem using L-BFGS-B method in optim function using an R code as res-optim(par=c(parInit), fn=myFunction, method = c(L-BFGS-B), lower = parMin, upper = parMax,

Re: [R] Tukey Kramer with ANOVA (glm)

2012-06-15 Thread David Winsemius
On Jun 14, 2012, at 2:17 PM, Alaska_Man wrote: Dr. Winsemius, Really quick, a BACI is a Before-After-Control-Impact approach. I have a long time series of sea cucumber density estimates, which are taken at the same location(s) through time. Some are in areas Impacted by sea otters and

[R] spelling correction using R

2012-06-15 Thread raishilpa
hello I want a code which can correct the spelling mistakes as well as grammatical mistakes in the sentences...that is if I am writing following sentence: I want too meet my frnd bt due to hectic shcedule I cant I want output in following way: I want to met my friend but due to hectic

[R] How to convert month-day-year to Julian data number?

2012-06-15 Thread Paloma Moya
Hello, I am trying to convert calendar dates (Month, Day, Year) into Julian Days   Product code Bureau of Meteorology station number Month Day Year Date_mdy Date 4102001 70014 1 1 1939 1/01/1939 1/01/1939 4102001 70014 1 2 1939 1/02/1939 2/01/1939 4102001 70014 1 3 1939 1/03/1939 3/01/1939

Re: [R] Using Sub

2012-06-15 Thread Duncan Murdoch
On 12-06-14 6:23 PM, Lopez, Dan wrote: Hi, I have been trying to get the sub function to work but can't for the life of me figure it out. I tried looking at ?sub but I think there is something that I am just not understanding. Example failed attempts sub(\\,/,G:\Compensation

Re: [R] histogram fill lattice

2012-06-15 Thread Deepayan Sarkar
On Wed, Jun 13, 2012 at 8:10 PM, David Winsemius dwinsem...@comcast.net wrote: On Jun 13, 2012, at 9:55 AM, Powell, Jeff wrote: Dear all, I would like to change the fill pattern of a histogram using histogram() in the lattice package.  I know how to do so using hist(), but would prefer to

[R] time zones and the chron to POSIXct conversion

2012-06-15 Thread Jannis
Hey R folks, i found some strange (to me) behaviour with chron to POSIXct conversion. The two lines of code result in two different results, on ewith the correct time zone, one without: library(chron) as.POSIXct(chron('12/12/2000'), tz = 'UTC') as.POSIXlt(chron('12/12/2000'), tz = 'UTC')

[R] R: Securities earning covariance

2012-06-15 Thread ANGELO.LINARDI
Good morning. I have a real fuzzy question to ask; we have a calculation engine which is composed by n virtual machines each of them with a jvm 2GB of memory on Linux Red Hat each of them with the R package which comes along with the Red Hat Linux distribution. We have now to increase the number

Re: [R] Using Sub

2012-06-15 Thread Rui Barradas
Hello, See inline. Em 15-06-2012 08:03, Duncan Murdoch escreveu: On 12-06-14 6:23 PM, Lopez, Dan wrote: Hi, I have been trying to get the sub function to work but can't for the life of me figure it out. I tried looking at ?sub but I think there is something that I am just not understanding.

Re: [R] Cholesky decomposition error

2012-06-15 Thread Bert Gunter
Follow the posting guide,please: I believe at this point we need reproducible code and your data to provide you help. See ?dput to post your matrix. -- Bert On Thu, Jun 14, 2012 at 11:30 PM, nata...@orchidpharma.com wrote: Thanks for your reply. To my surprise I can find one more strange

Re: [R] finite mixture modeling

2012-06-15 Thread Ingmar Visser
[plug to follow] depmixS4 fits hidden/latent Markov models on (mixed mode) multivariate longitudinal data (and it can be found on the cluster task view). hth, Ingmar On Thu, Jun 14, 2012 at 1:12 PM, ya xinxi...@163.com wrote: Hi all, I have a question, is there any R package dealing with

Re: [R] Cholesky decomposition error

2012-06-15 Thread nataraj
Thanks for your reply. I am sorry and I am bit hurried up to say before doing a proper due diligence, I have found out that during the optimization the variables tend to vary the values of the matrix , the function report error at some point (in particular iteration step) when the matrix become

[R] Looking for Speed in a Toy Simulation Example

2012-06-15 Thread Simon Knos
Dear List Members I used to play around with R to answer the following question by simulation (I am aware there is an easy explicit solution, but this is intended to serve as instructional example). Suppose you have a poker game with 6 players and a deck of 52 cards. Compute the empirical

[R] help in sentDetect() fuction

2012-06-15 Thread raishilpa
hello, I am using the following code s-I am very happy, excited, and optimistic.I am very scared, annoyed, and irritated.Iraq’s political crisis entered its second week one step closer to the potential.dissolution of the government, with a call for elections by a vital coalition partner and a

[R] Apply() on columns

2012-06-15 Thread faelsendoorn
Hi, I have some trouble with the following: I have a table of 7 rows and 6columns. The columns 1,2,3 have information about the number of employees. The columns 4,5,6 have information about the number of working hours. Each row, is corresponding with a week. My goal is to make a boxplot,

[R] Pass parameter to odfWeave

2012-06-15 Thread Frans Marcelissen
OdfWeave is a great way of creating reports and other quality output from R. But is there a simple way to pass a parameter to the report? What I mean is: odfWeave(templatefile,outputfile) creates the report. If would be much more flexible if it would be possible to do something like

[R] DEoptim example illustrating use of fnMap parameter for enforcement of cardinality constraints

2012-06-15 Thread David-Michael Lincke
Function DEoptim in package DEoptim for differential evolution defines an optional parameter fnMap: fnMap an optional function that will be run after each population is created, but before the population is passed to the objective function. This allows the user to impose integer/cardinality

Re: [R] how to add a vertical line for each panel in a lattice dotplot with log scale?

2012-06-15 Thread Deepayan Sarkar
On Mon, Jun 11, 2012 at 1:10 PM, maxbre mbres...@arpa.veneto.it wrote: sorry but I can't close this thread with a viable solution other than the following one (i.e. by defining an user function to add line); I understand that the problem is related to the fact that: mean(log(.)) !=

Re: [R] POSIXlt and trunc

2012-06-15 Thread Rui Barradas
Hello, It works with me. Problem with R version? OS? sessionInfo() R version 2.15.0 (2012-03-30) Platform: i386-pc-mingw32/i386 (32-bit) locale: [1] LC_COLLATE=Portuguese_Portugal.1252 LC_CTYPE=Portuguese_Portugal.1252 [3] LC_MONETARY=Portuguese_Portugal.1252 LC_NUMERIC=C [5]

Re: [R] histogram fill lattice

2012-06-15 Thread Powell, Jeff
Thank you for your response, I will try to be clearer. I would like to fill my lattice histogram bars using a symbol rather than a color. If that is not possible, then I will use hist() instead. From trellis.par.get() bar.fill only includes col, so perhaps I'm out of luck? With regards, Jeff

Re: [R] how to add a vertical line for each panel in a lattice dotplot with log scale?

2012-06-15 Thread maxbre
Thanks a lot, Deepayan! What a great honour hearing from you inside this thread! Now, at last, I understand where MY problem was (but please, don’t laugh – too loudly at least – and, first of all, sorry for that!) this was my “poor” wrong attempt (but I did not post this) means-mean(exp(x))

Re: [R] Looking for Speed in a Toy Simulation Example

2012-06-15 Thread Rui Barradas
Hello, Will a factor of 4 do? This is variant 3, revised. # ## Variant 3.b ## # ## Initialize matrix to hold results singlecolor - matrix(NA, simlength, noplayer)

[R] Help with Sequential Differencing

2012-06-15 Thread Lekgatlhamang, lexi Setlhare
Dear R Users, I have struggled with the following problem for days, which I thought was simple, although it would likely be basic to most of you. I am working with time series data. In my script, my intention is to create first differences of the variables in the file so that I end up

[R] Rename output file in Swaeve and Tex

2012-06-15 Thread Manish Gupta
HI, I am working on R and Latex. R CMD Sweave Test.Rnw (this generates Rnw.Tex file ) R CMD pdflatex Test.tex (It generated Test.pdf) Is there any way to change the name of of output file (Test.pdf). I want it to pass the output file name as parameter. R CMD Sweave Test.Rnw Output_File

Re: [R] Help with Sequential Differencing

2012-06-15 Thread Lekgatlhamang, lexi Setlhare
Dear R Users, Sorry for what seems like I am re-posting. When I was typing my initial posting, I intended to copy and paste the commands from my script, but ended up forgetting. I am now pasting the commands in this email.NB: Below is a copy of 'all' the relevant commands in my script    

Re: [R] Help with Sequential Differencing

2012-06-15 Thread Sarah Goslee
If you really want DCred1, DCred2, etc, you'll need to use assign() and paste() within your loop. But he's a more R-ish way: # Differences of Cred DCred - list() for(i in 1:5){ print(DCred[[i]]- diff(DCred, lag=i, difference=1)) } DCred[[1]] Sarah On Friday, June 15, 2012, Lekgatlhamang,

Re: [R] spelling correction using R

2012-06-15 Thread Oliver Ruebenacker
Hello, On Fri, Jun 15, 2012 at 1:10 AM, raishilpa raishilpa@gmail.com wrote: I want a code which can correct the spelling mistakes  as well as grammatical mistakes in the sentences...that is if I am writing following sentence: I want too meet my frnd bt due to hectic shcedule I cant

[R] moving from loops to apply

2012-06-15 Thread Schumacher, G.
Dear subscribers, I have made a simulation using loops rather than apply, simply because the loop function seems more natural to me. However, the current simulation takes forever and I have decided - finally - to learn how to use apply, but - as many other people before me - I am having a hard

Re: [R] moving from loops to apply

2012-06-15 Thread Rui Barradas
Hello, Simple question with reproducible example code. The best way to go is to know to what dimension you want to apply the function, the 1st, and to write the function in such a way as to have the passed rows as the first argument. If it has other arguments, they go after. Since your

Re: [R] moving from loops to apply

2012-06-15 Thread Schumacher, G.
Yes, it does thanks. Before your explanation I didn't understand that I had to separate distancer and y with a comma...great! From: Rui Barradas [ruipbarra...@sapo.pt] Sent: Friday, June 15, 2012 1:49 PM To: Schumacher, G. Cc: r-help@r-project.org

Re: [R] moving from loops to apply

2012-06-15 Thread Petr Savicky
On Fri, Jun 15, 2012 at 11:27:44AM +, Schumacher, G. wrote: Dear subscribers, I have made a simulation using loops rather than apply, simply because the loop function seems more natural to me. However, the current simulation takes forever and I have decided - finally - to learn how to

[R] Sugeestion about tuning of SVM

2012-06-15 Thread Guido Leoni
Dear list I've a generic question about how to tune an SVM I'm trying to classify with caret package some population data from a case-control study . In each column of my matrix there are the SNP genotypes , in each row there are the individuals. I correctly splitted my total dataset in

Re: [R] How to convert month-day-year to Julian data number?

2012-06-15 Thread Jean V Adams
?julian Paloma Moya polilla...@yahoo.es wrote on 06/15/2012 01:13:04 AM: Hello, I am trying to convert calendar dates (Month, Day, Year) into Julian Days Product code Bureau of Meteorology station number Month Day Year Date_mdy Date 4102001 70014 1 1 1939 1/01/1939 1/01/1939 4102001

Re: [R] Apply() on columns

2012-06-15 Thread Jean V Adams
Frans, I'm not sure I understand what you're after. I suggest that you share a small example data set, using dput(). Then give an example of what you want the output to look like. Jean faelsendoorn f.a.elsendo...@gmail.com wrote on 06/15/2012 03:09:41 AM: Hi, I have some trouble with the

Re: [R] Sugeestion about tuning of SVM

2012-06-15 Thread Mark Leeds
Hi: I don't know anything about gentoypes but it sounds like you overfitted the training set so you should try using regularization. In standard svm-classification algorithms, that can be done by decreasing the parameter C which decreases the objective functional penalty for mis-classifying. (

Re: [R] Customizing a Plot in Correspondence Analysis

2012-06-15 Thread Milan Bouchet-Valat
Le jeudi 14 juin 2012 à 20:32 -0400, Salvador Ramirez a écrit : Hello, Using the Correspondence Analysis package (ca), I wonder if there is a way to further customize the plot beyond the options given in plot.ca provided by the mentioned package. The correspondence analysis I am doing

Re: [R] spelling correction using R

2012-06-15 Thread R. Michael Weylandt
Grammar is quite complicated, but for spelling you might try this wonderful article by Peter Norvig: http://norvig.com/spell-correct.html Michael On Fri, Jun 15, 2012 at 12:10 AM, raishilpa raishilpa@gmail.com wrote: hello I want a code which can correct the spelling mistakes  as well as

Re: [R] Looking for Speed in a Toy Simulation Example

2012-06-15 Thread Simon Knos
Rui, thank you very much. I keep forgetting about the rowSum and friends. (precalculating the powers just slipped my attention). And, yes, a factor of will of course do. Do you see a further improvement in this case? Best, Simon On Fri, Jun 15, 2012 at 12:25 PM, Rui Barradas

Re: [R] Apply() on columns

2012-06-15 Thread R. Michael Weylandt
Just to take a stab at it, I'd suggest you don't actually need apply() and could simply get what you need with hist(DATA[,4:6]) if your data is as described. Michael On Fri, Jun 15, 2012 at 7:23 AM, Jean V Adams jvad...@usgs.gov wrote: Frans, I'm not sure I understand what you're after. I

Re: [R] Help with Sequential Differencing

2012-06-15 Thread Sarah Goslee
I missed something in my original reply: You intended a recursive approach, I think, but that wasn't clear in your code, and I simply repeated your actual code rather than your intended code in my response. If that's what you want, you need something more like: DCred- list() DCred[[1]] -

Re: [R] moving from loops to apply

2012-06-15 Thread Petr Savicky
On Fri, Jun 15, 2012 at 02:08:13PM +0200, Petr Savicky wrote: On Fri, Jun 15, 2012 at 11:27:44AM +, Schumacher, G. wrote: Dear subscribers, I have made a simulation using loops rather than apply, simply because the loop function seems more natural to me. However, the current

Re: [R] POSIXlt and trunc

2012-06-15 Thread R. Michael Weylandt
General rule of thumb: use POSIXct rather than POSIXlt for such things and only convert to POSIXlt (losslessly) at the end of your calculations when you need it for display reasons. Internally, POSIXct is just a double, so it is nice to do calculations on, while POSIXlt is a list-like object which

Re: [R] histogram fill lattice

2012-06-15 Thread David Winsemius
On Jun 15, 2012, at 5:40 AM, Powell, Jeff wrote: Thank you for your response, I will try to be clearer. I would like to fill my lattice histogram bars using a symbol rather than a color. If that is not possible, then I will use hist() instead. From trellis.par.get() bar.fill only

Re: [R] Divide all rows of a data frame by the first row.

2012-06-15 Thread Keith Weintraub
Jeff, Thanks. I was able to easily get rid of the do.call code and use the t( t(...)) construct. In terms of the dates I have tried your suggestion and I am having an odd problem. The dates I included in my previous message were only a subset of the actual dates I am using. My dates were

Re: [R] R: Securities earning covariance

2012-06-15 Thread R. Michael Weylandt
I'm somewhat confused: i) What does this have to do with your subject line? ii) There does not exist -- to my knowledge -- an implementation of R which runs on the JVM. iii) Have you simply looked into R's native parallel computing options? That seems to be (maybe?) what you are trying to do.

Re: [R] help in sentDetect() fuction

2012-06-15 Thread R. Michael Weylandt
On Fri, Jun 15, 2012 at 1:48 AM, raishilpa raishilpa@gmail.com wrote: hello, I am using the following code s-I am very happy, excited, and optimistic.I am very scared, annoyed, and irritated.Iraq’s political crisis entered its second week one step closer to the potential.dissolution of

[R] R under JVM

2012-06-15 Thread ANGELO.LINARDI
Dear all, first of all I apologize for not having changed the object. I just re-used an old email I sent some time ago. The let us go into the question. Our architecture is the following: A (set of) java programs running under a jvm that passes data and instructions to an R instance

Re: [R] spelling correction using R

2012-06-15 Thread R. Michael Weylandt
On Fri, Jun 15, 2012 at 8:24 AM, shilpa rai raishilpa@gmail.com wrote: thanks to all :) Unless I suddenly became plural, I believe you meant to hit reply-all. I have found a code on nets , please visit the following link

Re: [R] Looking for Speed in a Toy Simulation Example

2012-06-15 Thread R. Michael Weylandt
As of recent versions of R, you can actually go for what are officially recognized as ultimate speed functions .rowSums() and friends. You might also use the compiler() package to byte-compile that inner loop. [The function going to sapply] It won't be massive, but perhaps another 3 or 4x

Re: [R] Looking for Speed in a Toy Simulation Example

2012-06-15 Thread R. Michael Weylandt
On Fri, Jun 15, 2012 at 9:48 AM, R. Michael Weylandt michael.weyla...@gmail.com wrote: As of recent versions of R, you can actually go for what are officially recognized as ultimate speed functions .rowSums() and friends. Sorry, perhaps that wasn't totally clear. Regarding .rowSums() note that

Re: [R] Divide all rows of a data frame by the first row.

2012-06-15 Thread R. Michael Weylandt
Honestly, given what a pain dates are in Excel, I might simply import them as strings and do the conversion on the R side of things. Also, I'd recommend you use Date objects rather than POSIXct to cut out the unnecessary complexity of timezones, DST, etc. [See Gabor's article in RNews 4/1 for a

Re: [R] Rename output file in Swaeve and Tex

2012-06-15 Thread Yihui Xie
I do not think it is possible with the 'R CMD Sweave' interface, but you can always use the 'R -e' approach, e.g. R -e 'Sweave(foo.Rnw); file.rename(foo.tex, foo-bar.tex); tools::texi2dvi('foo-bar.tex')' (not tested, but idea is there) To make this more natural, you can try the knitr package

Re: [R] R under JVM

2012-06-15 Thread R. Michael Weylandt
On Fri, Jun 15, 2012 at 9:36 AM, angelo.lina...@bancaditalia.it wrote: Dear all, first of all I apologize for not having changed the object. Subject you mean. Linguistically, it is perhaps a little arbitrary, but that's the name the email gods chose long ago and I tend to agree with them. I

[R] Replication of linear model/autoregressive model

2012-06-15 Thread Al Ehan
Hi, I would like to make a replication of 10 of a linear, first order Autoregressive function, with respect to the replication of its innovation, e. for example: #where e is a random variables of innovation (from GEV distribution-that explains the rgev) #by using the arima.sim model from TSA

Re: [R] wgcna

2012-06-15 Thread Ingezz
Dear Peter, I am trying to apply the WGCNA meta-analysis for two (or more) microarray datasets-tutorial to my own data. mp=modulePreservation(multiExpr,multiColor,referenceNetworks=1,verbose=3,networkType=signed, nPermutations=30,maxGoldModuleSize=100,maxModuleSize=400) However, the error

[R] R start screen

2012-06-15 Thread Rossenu, Stefaan
After installation of R on windows machine and starting the R program, I only see the R-console but not the RGUI screen... Do I need to re-install or change some settings? Tx! Notice: This e-mail message, together with any attachme...{{dropped:14}}

Re: [R] plot cdf

2012-06-15 Thread MSousa
Thanks -- View this message in context: http://r.789695.n4.nabble.com/plot-cdf-tp4633349p4633515.html Sent from the R help mailing list archive at Nabble.com. __ R-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do

[R] Multivariate Normal and loops

2012-06-15 Thread Cassie
Hi, i'm not english and i'm not very familiar to R, and i'm asking if you can help me. I'm wondering how to create a multivariate normal an then repeat this for a sample of T=1000, and the save this result. Thank you very much for your helping -- View this message in context:

[R] Binary Quadratic Opt?

2012-06-15 Thread Anup Bhatkar
Hello, I have to solve Binary Quadratic Optimization problem i.e the objective function is quadratic, constraints are linear and variable are binary. I checked the quadprog package but it does not seem to be right choice for the problem. Can any one suggest what would be the best package to

Re: [R] Help with Sequential Differencing

2012-06-15 Thread Lekgatlhamang, lexi Setlhare
Dear Sarah, Thanks very much for the assistance. I will go through what you have suggested to understand. Lexi - Original Message - From: Sarah Goslee sarah.gos...@gmail.com To: Lekgatlhamang, lexi Setlhare lexisetlh...@yahoo.com Cc: r-help@r-project.org r-help@r-project.org Sent:

Re: [R] How to convert month-day-year to Julian data number?

2012-06-15 Thread arun
Hi, Try: ?library(chron) julian()  x-c(1:5) #month  d-c(10:14) #day  y-1970 #year julian(x,d,y,origin=c(month=2,day=1,year=1970)) [1] -22  10  39  71 102 A.K. - Original Message - From: Paloma Moya polilla...@yahoo.es To: r-help@r-project.org r-help@r-project.org Cc: Sent:

Re: [R] Help with Sequential Differencing

2012-06-15 Thread Lekgatlhamang, lexi Setlhare
Thanks Sarah,   Yes, I really want DCred1, DCred2, etc. I will check and understand your answer. I appreciate your time and help.   Lexi From: Sarah Goslee sarah.gos...@gmail.com Cc: r-help@r-project.org r-help@r-project.org Sent: Friday, June 15, 2012 12:54 PM

Re: [R] Multivariate Normal and loops

2012-06-15 Thread R. Michael Weylandt
I don't think you need loops at all actually :-) [The main thing to working with R vs. C is vectorization -- embrace it now and life will be much better] You could do something like this: library(MASS) # Provides a multivariate normal distribution mvrnorm(100, c(1,5), matrix(c(2,1,1,2), ncol =

Re: [R] Divide all rows of a data frame by the first row.

2012-06-15 Thread Jeff Newmiller
Since RExcel imports date/time columns as POSIXt, sticking with that is probably simpler in this case. The key I have found that makes the use of POSIXt types relatively straightforward is to set the TZ environment variable using Sys.setenv() to a value that is compatible with the timezone of

Re: [R] Help with Sequential Differencing

2012-06-15 Thread Lekgatlhamang, lexi Setlhare
Hi Sarah,   Sorry for taking more of your time. I thought that before investigating the use of assign and paste, I should first understand the approach of using 'list()'. However, it seems to me that the use of list does not work very well, unless I have wrongly implemented your suggestion. I

[R] R: R: Securities earning covariance

2012-06-15 Thread ANGELO.LINARDI
Hello, first of all tank to both of you for your fast response. Going back to Michael's wonderful ASCII art masterpiece, what we have now is something like this: --- JVM --- JAVA JDBC | | Algorithm |

Re: [R] R: Securities earning covariance

2012-06-15 Thread Oliver Ruebenacker
Hello, On Fri, Jun 15, 2012 at 10:15 AM, R. Michael Weylandt michael.weyla...@gmail.com wrote: ii) There does not exist -- to my knowledge -- an implementation of R which runs on the JVM. I think he means driving the R framework from Java via JNI. I think the questions boils down to

Re: [R] R start screen

2012-06-15 Thread Duncan Murdoch
On 12-06-15 9:04 AM, Rossenu, Stefaan wrote: After installation of R on windows machine and starting the R program, I only see the R-console but not the RGUI screen... Do I need to re-install or change some settings? R is a short form for Rterm, so that's what should start. If you want

[R] some help to improve hist to plot relative frequencies

2012-06-15 Thread gianni lavaredo
Dear Researches, sorry for disturb. I wish to improve my figure in R plotting the relative frequencies of my data set. library(lattice) a - c(0,0,0,1,1,2,4,5,6,7,7,7,7,7,8,8,8,8,9,9,9,9,10,10,11) histogram(a, xlab=myData) what i wish to do is: 1) invert the order of X and Y (eg: Precent of

[R] R -- JVM

2012-06-15 Thread ANGELO.LINARDI
Hello, first of all thanks to both of you for your fast response. Going back to Michael's wonderful ASCII art masterpiece, what we have now is something like this: --- JVM --- JAVA JDBC | | Algorithm |

Re: [R] R -- JVM

2012-06-15 Thread R. Michael Weylandt
On Fri, Jun 15, 2012 at 11:03 AM, angelo.lina...@bancaditalia.it wrote: Hello, first of all thanks to both of you for your fast response. Going back to Michael's wonderful ASCII art masterpiece, what we have now is something like this: ---  JVM ---    JAVA        

Re: [R] R: Securities earning covariance

2012-06-15 Thread R. Michael Weylandt
On Fri, Jun 15, 2012 at 10:35 AM, Oliver Ruebenacker cur...@gmail.com wrote:     Hello, On Fri, Jun 15, 2012 at 10:15 AM, R. Michael Weylandt michael.weyla...@gmail.com wrote: ii) There does not exist -- to my knowledge -- an implementation of R which runs on the JVM.  I think he means

Re: [R] remove leading slash

2012-06-15 Thread Spencer Graves
How about an alternative: **|install.packages(sos, repos=http://R-Forge.R-project.org;)|** library(sos) (x - back2ForwardSlash()) \002 \001 \102 (xs - strsplit(x, '/')[[1]][-1]) nch - nchar(xs) while(any((nch2 - nchar(xs - gsub('^0', '', xs)))nch))nch - nch2 xs I liked your deparse

Re: [R] Apply() on columns

2012-06-15 Thread Peter Ehlers
On 2012-06-15 01:09, faelsendoorn wrote: Hi, I have some trouble with the following: I have a table of 7 rows and 6columns. The columns 1,2,3 have information about the number of employees. The columns 4,5,6 have information about the number of working hours. Each row, is corresponding with a

Re: [R] R -- JVM

2012-06-15 Thread Oliver Ruebenacker
Hello, By RNI, do you mean the Microsoft Raw Native Interface or the Rengine R Native Interface? Take care Oliver On Fri, Jun 15, 2012 at 12:03 PM, angelo.lina...@bancaditalia.it wrote: Hello, first of all thanks to both of you for your fast response. Going back to

[R] Wrong computation of time differenze in POSIXct - additional digits

2012-06-15 Thread Julia
Hello, I wanted to compute the time differenze between to times: first =as.POSIXct( 2012-06-15 16:32:39.0025 CEST) second = as.POSIXct(2012-06-15 16:32:39.0086 CEST) second - first The result is Time difference of 0.006099939 secs instead of just 0.0061 secs So R adds aditional numbers

Re: [R] Binary Quadratic Opt?

2012-06-15 Thread Petr Savicky
On Fri, Jun 15, 2012 at 05:17:36PM +0530, Anup Bhatkar wrote: Hello, I have to solve Binary Quadratic Optimization problem i.e the objective function is quadratic, constraints are linear and variable are binary. I checked the quadprog package but it does not seem to be right choice for

Re: [R] Wrong computation of time differenze in POSIXct - additional digits

2012-06-15 Thread David Winsemius
On Jun 15, 2012, at 12:49 PM, Julia wrote: Hello, I wanted to compute the time differenze between to times: first =as.POSIXct( 2012-06-15 16:32:39.0025 CEST) second = as.POSIXct(2012-06-15 16:32:39.0086 CEST) second - first The result is Time difference of 0.006099939 secs instead of just

Re: [R] Cholesky decomposition error

2012-06-15 Thread Kjetil Halvorsen
see inline. On Fri, Jun 15, 2012 at 4:33 AM, nata...@orchidpharma.com wrote: Thanks for your reply. I am sorry and I am bit hurried up to say before doing a proper due diligence, I have found out that during the optimization the variables tend to vary the values of the matrix , the function

Re: [R] R start screen

2012-06-15 Thread David L Carlson
It can also be affected by the MDI setting in your Rconsole file. If you have MDI = yes Then the RGui runs with the console inside it and the menu bar is on RGui. If you have MDI = no Then you get one the Rconsole and the menu bar is on Rconsole. The default is generally MDI=yes, but if you

Re: [R] Wrong computation of time differenze in POSIXct - additional digits

2012-06-15 Thread Rui Barradas
Hello, A classic of floating-point accuracy is 3/5 - 3/5 [1] 0 3/5 - (2/5 + 1/5) [1] -1.110223e-16 3/5 - 2/5 - 1/5 [1] -5.551115e-17 Rui Barradas Em 15-06-2012 18:18, David Winsemius escreveu: On Jun 15, 2012, at 12:49 PM, Julia wrote: Hello, I wanted to compute the time differenze

[R] How do anova() and Anova(type=III) handle incomplete designs?

2012-06-15 Thread Justin Montemarano
Hello all: I am confused about the output from a lm() model with an incomplete design/missing level. I have two categorical predictors and a continuous covariate (day) that I am using to model larval mass (l.mass): leaf.species has three levels - map, syc, and oak cond.time has two levels -

Re: [R] Looking for Speed in a Toy Simulation Example

2012-06-15 Thread Rui Barradas
Hello, With Michael's sugestions (I keep forgeting package compiler) t0 - system.time({ ... variant 3.b ... # ## Variant 3.c ## # install.packages(compiler)

Re: [R] wgcna

2012-06-15 Thread Peter Langfelder
On Fri, Jun 15, 2012 at 8:04 AM, Ingezz irholt...@gmail.com wrote: Dear Peter, I am trying to apply the WGCNA meta-analysis for two (or more) microarray datasets-tutorial to my own data. mp=modulePreservation(multiExpr,multiColor,referenceNetworks=1,verbose=3,networkType=signed,

Re: [R] phyloclim help

2012-06-15 Thread Brent Hendrixson
Hi David - Looking at the package documentation I see this: maxent: A list containing the location of the MAXENT application and its input files (see details). Maybe I was wrong about 'spec' and the malformed argument is 'maxent'. If I had been constructing it I would have created a

Re: [R] dumpMethods (was: How to build a large identity matrix faster?)

2012-06-15 Thread Spencer Graves
dumpMethods('diag', file='diag.R') readLines('diag.R') character(0) I appreciate the alternative suggested by Ceci Tam, but is this result a feature or a bug? More generally, what do you recommend I read to learn about S4 generics? I've read fair portions of Chambers

[R] strings concatenation and organization (fast)

2012-06-15 Thread Ben quant
Hello, What is the fastest way to do this? I has to be done quite a few times. Basically I have sets of 3 numbers (as characters) and sets of 3 dashes and I have to store them in named columns. The order of the sets and the column name they fall under is important. The actual numbers and the

[R] argument x is missing, with no default - Please help find argument x

2012-06-15 Thread dunner
R programming question, not machine learning, although that's the content. Apologies to all for whom the following code is eye-burning. I am using foreach() to run a simulation on a randomForest model (actually conditional randomForest ... party package). The simulation is in two dimensions.

Re: [R] strings concatenation and organization (fast)

2012-06-15 Thread Phil Spector
Ben - There are most likely faster ways, but matrix(apply(matrix(rep_vec,ncol=3,byrow=TRUE),1,paste,collapse=''), ncol=4,byrow=TRUE,dimnames=list(NULL,nms)) seems reasonably fast. (Do you really mean 4 columns and *5* rows? With rep_vec = rep(vec,times=20), I get 25 rows.)

Re: [R] phyloclim help

2012-06-15 Thread David Winsemius
On Jun 15, 2012, at 3:43 PM, Brent Hendrixson wrote: Hi David - Looking at the package documentation I see this: maxent: A list containing the location of the MAXENT application and its input files (see details). Maybe I was wrong about 'spec' and the malformed argument is 'maxent'. If

Re: [R] strings concatenation and organization (fast)

2012-06-15 Thread Rui Barradas
Hello, Try vec = c(1,2,3,-,-,-,4,5,6,1,2,3,-,-,-) nms = c(A,B,C,D) rep_vec - rep(sapply(split(vec, cumsum(rep(c(1, 0, 0), 5))), paste, collapse=), 4) mat - matrix(rep_vec, nrow=5, byrow=TRUE, dimnames=list(NULL,nms)) mat Hope this helps, Rui Barradas Em 15-06-2012 21:11, Ben quant

Re: [R] Wrong computation of time differenze in POSIXct - additional digits

2012-06-15 Thread peter dalgaard
On Jun 15, 2012, at 20:33 , Rui Barradas wrote: Hello, A classic of floating-point accuracy is 3/5 - 3/5 [1] 0 3/5 - (2/5 + 1/5) [1] -1.110223e-16 3/5 - 2/5 - 1/5 [1] -5.551115e-17 Rui Barradas Yes. There are only about 16 significant digits in (64 bit) floating point. One

Re: [R] Trouble with .bat files upon installation of 15.0

2012-06-15 Thread Sarah Henderson
Thanks for your help -- you were absolutely correct. And I apologize for the poor nomenclature -- when referring to versions I always just say 'fifteen' or 'twelve point one', so it is too easy to forget the leading '2.' when typing. Careless of me. Cheers, Sarah - Until June 8th I was

Re: [R] strings concatenation and organization (fast)

2012-06-15 Thread Ben quant
I'm checking out Phil's solution...so far so good. Thanks! Yes, 25 not 5 rows, sorry about that. Rui - I can't modify rep_vec...that's just sample data. I have to start with rep_vec and go from there. have a good weekend all... Ben On Fri, Jun 15, 2012 at 2:51 PM, Rui Barradas

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