Re: [R] Color2D.matplot uniform color range

2011-12-12 Thread Jim Lemon
On 12/12/2011 02:48 PM, jalfaro wrote: Hi all. I am having a problem using color2D.matplot I am trying to visualize several different matrices under two color ranges. One color range corresponds to values less than 1 and the second color range for values greater than 1. However, the minimum

Re: [R] Color2D.matplot uniform color range

2011-12-12 Thread Jim Lemon
Hi jalfaro, Apologies for the typo in the last message, the first two lines in the second example should read: cellcolors[d1]- color.scale(c(0,1,d[d1]),cs1=c(0,0,1),cs2=c(0,0,1),cs3=1)[-1:2] That is, minus the first two values returned. Jim __

Re: [R] Colours for sunflowerplot

2011-12-12 Thread Jim Lemon
On 12/12/2011 06:00 PM, Nicola Van Wilgen wrote: Dear fellow R users, I would like to draw a sunflowerplot because I have data (decade by month) that plots multiple times on the same x-y co-ordinates. Further I would like to colour each of the points/sunflower leaves on the plot according to

[R] how to colour labels (each label with a colour) in a dendrogram?

2011-12-12 Thread barbara costa
Hello to all, I still have this doubt. I'd like to colour the different labels of my dendrogram each one with a different colour. How can I do? I guess I could do using *edgetext* and then *t.col* or* lab.col* but I don't know how to add edgetext to my dendrogram. Can you help me please? Example:

[R] round Date object to 10 minutes intervals?

2011-12-12 Thread Katharina May
Hello *, I'm trying to round time stamps, consisting of a date and time part, to 10 minutes intervals The timestamps have the following format: %d.%m.%Y %H:%M *timeStamp - c(31.03.2011 09:30, 31.03.2011 09:41, 31.03.2011 10:04, 31.03.2011 10:10, 31.03.2011 10:28, 31.03.2011 10:35, 31.03.2011

Re: [R] round Date object to 10 minutes intervals?

2011-12-12 Thread Prof Brian Ripley
You haven't specified how you want 00:05 rounded (it is neither nor 5). But here's one way t2 - strptime(timeStamp, format=%d.%m.%Y %H:%M) t2$min - round(t2$min, -1) format(t2, %d.%m.%Y %H:%M) [1] 31.03.2011 09:30 31.03.2011 09:40 31.03.2011 10:00 31.03.2011 10:10 [5] 31.03.2011 10:30

[R] For loop indicies

2011-12-12 Thread Thomas Chesney
I would like to run a for loop with an index going from 0 to 499 but the following seems to miss out the first value: C - 499 for (i in 0:C) The alternative is: C - 500 for (i in 1:C) { #Then every time I use i, I replace it with i-1 } Is this a good way to do it or is tere a better way?

[R] Question about multiple histogram

2011-12-12 Thread Guido Leoni
Dear list I have a matrix such as the following: 1 0,5 1 0.7 1 0.5 2 1 3 0 4 0.2 I'd like to plot the histogram of the first column (this is very easy) and then for each bin of the obtained histogram to plot another histogram on the z-axis of the frequencies of the second column for the values

Re: [R] multiple comparison of interaction of ANCOVA

2011-12-12 Thread Jinsong Zhao
On 2011-12-11 22:49, Bert Gunter wrote: Inline below. -- Bert Graph the data sensibly to figure out what's going on. Statistical machinationsand anova tables with P values alone are not sufficient and can be opaque or misleading. If you do not know what sensibly is (or even if you do),

Re: [R] For loop indicies

2011-12-12 Thread Andris Jankevics
Hi, what about this: C - 0:499 for (i in C) { cat (i, ) } Best regards, Andris Jankevics AIO Groningen Bioinformatics Centre Groningen Biomolecular Sciences and Biotechnology Institute University of Groningen Kerklaan 30, Haren, 9751 NN, The Netherlands On Mon, Dec 12, 2011 at 11:44, Thomas

Re: [R] For loop indicies

2011-12-12 Thread Sarah Goslee
Hi, On Mon, Dec 12, 2011 at 6:44 AM, Thomas Chesney thomas.ches...@nottingham.ac.uk wrote: I would like to run a for loop with an index going from 0 to 499 but the following seems to miss out the first value: C - 499 for (i in 0:C) First off, you've named your variable for an existing

Re: [R] For loop indicies

2011-12-12 Thread Enrico Schumann
You may want to check how your loop misses out the zero: C - 5 for (i in 0:C) print(i) ## gives me [1] 0 [1] 1 [1] 2 [1] 3 [1] 4 [1] 5 Regards, Enrico Am 12.12.2011 12:44, schrieb Thomas Chesney: I would like to run a for loop with an index going from 0 to 499 but the following seems to

Re: [R] how to colour labels (each label with a colour) in a dendrogram?

2011-12-12 Thread Sarah Goslee
Did you try this: http://r.789695.n4.nabble.com/coloring-leaves-in-a-hclust-or-dendrogram-plot-td795496.html or this: http://bioinformatics.mdanderson.org/Software/OOMPA/ClassDiscovery/html/plotColoredClusters.html edgetext labels the segments, I think, and is not what I understand you to want,

Re: [R] multiple comparison of interaction of ANCOVA

2011-12-12 Thread Jinsong Zhao
On 2011-12-12 1:48, Richard M. Heiberger wrote: Thank you for you use of HH. I think the right graph for this data is the much simpler ancova function library(HH) ancova(y ~ year * Trt, data=mydata) where we see that the three treatments have totally different slopes. Thank you very much for

[R] Package/command for creating a table of panel models ?

2011-12-12 Thread ManuelS
Hello Everyone (Quick) question: Does anyone know a package/command or simply a way of creating a table of different panel data estimations (estimated using /*plm()*/ ) just as *mtable()* does for models estimated with /*lm()*/? It seems *mtable* (and *apsrtable* equally) only support /*lm*/ and

Re: [R] Package/command for creating a table of panel models ?

2011-12-12 Thread Achim Zeileis
On Mon, 12 Dec 2011, ManuelS wrote: Hello Everyone (Quick) question: Does anyone know a package/command or simply a way of creating a table of different panel data estimations (estimated using /*plm()*/ ) just as *mtable()* does for models estimated with /*lm()*/? It seems *mtable* (and

[R] Stratification criteria mess up the use of a random factor?

2011-12-12 Thread Hege Gundersen
Hi! In my study on kelp I want to see how wave exposure and current (both continuous variables) affect kelp physical measures along the Norwegian coast. To assure a balanced design, I stratified my study area into 9 different classes, defined by all combinations of three levels of wave

[R] Script analysing

2011-12-12 Thread Alexander
Hello, I am trying to write a script to analyse R scripts, which contain only functions. Therefor, I want to test the R script if it contains onyl correct code. Is there a nicer and more efficent function than test - try(source(someRscript)) if(class(test) == try-error){ print(Not executable)

[R] Confidence intervals of gls function?

2011-12-12 Thread adolf . stips
Dear gls-experts, while reading and testing some examples of the book introductionary time series analysis with R, I encountered the following fact which puzzles me. Confidence intervals for global temperature time series (P99) computed from general least squares (GLS) to fit the time series.

[R] vcov for lm.gls

2011-12-12 Thread idbg
Dear all, I'm using the function lm.gls but I'm puzzled by the very limited output. I do get the regression coefficients but not their standard errors. Neither summary(), anova() or vcov() works properly for a lm.gls object. Preferably I look for a function like vcov that will give me the

[R] i can't read large NETCDF file like CRU

2011-12-12 Thread tony333
i use library(ncdf) to read this file as follow library(ncdf) sst.nc = open.ncdf(title) lonall = get.var.ncdf(sst.nc,'lon') latall = get.var.ncdf(sst.nc,'lat') precip = get.var.ncdf(sst.nc,'pre') close(sst.nc) if i use this method my pc freeze and not respond until i restart it is there -- View

Re: [R] split date nad time

2011-12-12 Thread threshold
Thanks for help. Ive already sorted this out. robert -- View this message in context: http://r.789695.n4.nabble.com/split-date-nad-time-tp4164191p4185788.html Sent from the R help mailing list archive at Nabble.com. __ R-help@r-project.org mailing

Re: [R] color2D.maplot fixed color range

2011-12-12 Thread David Winsemius
On Dec 11, 2011, at 10:19 PM, jalfaro wrote: Hello, Were you ever able to find a solution to your problem? I have been trying on and off to solve this problem for several months now. I would love to hear if you found a solution. Neither the person who posted the problem a year ago or you

[R] Rsolnp package: warning messages

2011-12-12 Thread Diogo Alagador
Dear, I am using the solnp command (package Rsolnp) for a problem with equality and inequality constraints. I am not getting convergence for my problem but apart that I get 1 warning per iteration saying: ?In cbind(temp, funv) : number of rows of result is not a multiple of vector length

[R] calculating logit parameters (odd ratio is exactly one or zero)

2011-12-12 Thread wim nursal
Dear statistician experts, Sorry if this is a trivial question, or the old same question (i don't know what is the efficient key word for this issue). In order to understand the calculation of parameter of logistic regression, I did an exercise through spreadsheet following the procedural

Re: [R] Colours for sunflowerplot

2011-12-12 Thread Nicola Van Wilgen
Hi Jim, I think this will work well for what I need it for - thanks a lot! I would still be interested (for interest sake) if anyone knows how to get this to work using sunflower plot. Thanks again, Nicola -Original Message- From: Jim Lemon [mailto:j...@bitwrit.com.au] Sent: 12

Re: [R] round Date object to 10 minutes intervals?

2011-12-12 Thread kmay
Dear Mr. Ripley, your answer perfectly fits my needs, thank you very much. (And yes, rounding 5 to even is what I wanted). Prof Brian Ripley wrote t2 - strptime(timeStamp, format=%d.%m.%Y %H:%M) t2$min - round(t2$min, -1) format(t2, %d.%m.%Y %H:%M) [1] 31.03.2011 09:30 31.03.2011 09:40

[R] not complete character in csv file

2011-12-12 Thread threshold
Dear R users, I got the following problem. Given that data[3,2] [1] 010252 Code: intro - data.frame() intro[1,1] - as.character(data[3,2]) write.csv(intro, file='intro.csv') In 'intro.csv' file I am loosing the 0 in frot of 10252, which I need. Is there a way to keep the full character saved?

Re: [R] Dividing rows when time is overlapping

2011-12-12 Thread Jean V Adams
PEL wrote on 12/07/2011 02:37:42 PM: Hi all, I have dataframe that was created from the fusion of two dataframes. Both spanned over the same time intervall but contained different information. When I put them together, the info overlapped since there is no holes in the time interval of

[R] shorter way of coding

2011-12-12 Thread Mintewab Bezabih
Dear R users, I am using the code below to generate a fitted value of b. I have about 300 different values for for y (y1, y2, ...y300) which means I will have to write the code below 300 times to generate the 300 different fitted values for y. Is there a short way of doing that ? Many thanks

Re: [R] prop.test() and the simultaneous confidence interval for multiple proportions in R

2011-12-12 Thread Jean V Adams
?prop.test The very first line in the help file on the function prop.test(): prop.test can be used for testing the null that the proportions (probabilities of success) in several groups are the same ... How to interpret the results of the prop.test() you ran? The proportion preferring

Re: [R] shorter way of coding

2011-12-12 Thread Sarah Goslee
This isn't a reproducible example, so I can't provide code, but I would put all the y variables in a list and use lapply(). Sarah On Mon, Dec 12, 2011 at 8:16 AM, Mintewab Bezabih mintewab.beza...@economics.gu.se wrote: Dear R users, I am using the code below to generate a fitted value of b.

Re: [R] shorter way of coding

2011-12-12 Thread Paul Hiemstra
On 12/12/2011 01:16 PM, Mintewab Bezabih wrote: Dear R users, I am using the code below to generate a fitted value of b. I have about 300 different values for for y (y1, y2, ...y300) which means I will have to write the code below 300 times to generate the 300 different fitted values for

Re: [R] Script analysing

2011-12-12 Thread Paul Hiemstra
On 12/12/2011 10:39 AM, Alexander wrote: Hello, I am trying to write a script to analyse R scripts, which contain only functions. Therefor, I want to test the R script if it contains onyl correct code. Is there a nicer and more efficent function than test - try(source(someRscript))

Re: [R] not complete character in csv file

2011-12-12 Thread Jean V Adams
threshold wrote on 12/12/2011 06:23:33 AM: Dear R users, I got the following problem. Given that data[3,2] [1] 010252 Code: intro - data.frame() intro[1,1] - as.character(data[3,2]) write.csv(intro, file='intro.csv') In 'intro.csv' file I am loosing the 0 in frot of 10252, which I

Re: [R] Script analysing

2011-12-12 Thread Paul Hiemstra
On 12/12/2011 10:39 AM, Alexander wrote: Hello, I am trying to write a script to analyse R scripts, which contain only functions. Therefor, I want to test the R script if it contains onyl correct code. Is there a nicer and more efficent function than test - try(source(someRscript))

Re: [R] i can't read large NETCDF file like CRU

2011-12-12 Thread Paul Hiemstra
On 12/12/2011 10:19 AM, tony333 wrote: i use library(ncdf) to read this file as follow library(ncdf) sst.nc = open.ncdf(title) lonall = get.var.ncdf(sst.nc,'lon') latall = get.var.ncdf(sst.nc,'lat') precip = get.var.ncdf(sst.nc,'pre') close(sst.nc) if i use this method my pc freeze and

Re: [R] shorter way of coding

2011-12-12 Thread Petr PIKAL
Hi Dear R users, I am using the code below to generate a fitted value of b. I have about 300 different values for for y (y1, y2, ...y300) which means I will have to write the code below 300 times to generate the 300 different fitted values for y. Is there a short way of doing that ?

Re: [R] Package/command for creating a table of panel models ?

2011-12-12 Thread ManuelS
Thank you! I'm going to look into that straight away. Manu -- View this message in context: http://r.789695.n4.nabble.com/Package-command-for-creating-a-table-of-panel-models-tp4185744p4186077.html Sent from the R help mailing list archive at Nabble.com.

[R] plinear

2011-12-12 Thread Liam Brown
I was wondering if there is way to place constraints upon the plinear algorithm of nls, or rather is there a manner in which this can be achieved because nls does not allow this to be done. I only want to place constraints on one of the nonlinear parameters, a, such that it is between 0 and

Re: [R] not complete character in csv file

2011-12-12 Thread David Winsemius
On Dec 12, 2011, at 7:23 AM, threshold wrote: Dear R users, I got the following problem. Given that data[3,2] [1] 010252 Code: intro - data.frame() intro[1,1] - as.character(data[3,2]) write.csv(intro, file='intro.csv') In 'intro.csv' file I am loosing the 0 in frot of 10252, which I

Re: [R] Bioconductor. MA plot for qPCR array

2011-12-12 Thread R. Michael Weylandt michael.weyla...@gmail.com
This question is perhaps best asked on the specialized Bioconductor mailing list. The audience there is quite knowledgeable and will certainly be able to help. Michael On Dec 11, 2011, at 8:08 AM, ali_protocol mohammadianalimohammad...@gmail.com wrote: Dear all, Is there anyway too

Re: [R] littler: Use for batch processing of data sets: How to pass filename?

2011-12-12 Thread R. Michael Weylandt michael.weyla...@gmail.com
Why can't you just replace temp/data with filename (no quotes)? I'm not sure I get the question... Michael On Dec 12, 2011, at 5:26 AM, Paul Menzel paulepan...@users.sourceforge.net wrote: Dear R folks, I have several data sets I want to process automatically using R. I found littler

[R] Please sign me out from the r-help group. Thanks!

2011-12-12 Thread Kaigang Li
[[alternative HTML version deleted]] __ R-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained,

Re: [R] how to colour labels (each label with a colour) in a dendrogram?

2011-12-12 Thread barbara costa
Thanks a lot. I didn't find that. I prefered the option with class discovery package which we have to install from OOMPA project. barbara On 12 December 2011 11:58, Sarah Goslee sarah.gos...@gmail.com wrote: Did you try this:

Re: [R] Please sign me out from the r-help group. Thanks!

2011-12-12 Thread Sarah Goslee
Please sign yourself out, using the linke that appears at the bottom of each and every message from the list. On Mon, Dec 12, 2011 at 9:48 AM, Kaigang Li likaig...@yahoo.com wrote:        [[alternative HTML version deleted]] __ R-help@r-project.org

[R] serial.test

2011-12-12 Thread Alemtsehai Abate
Dear R users, I want to test for serial correlation in each equation of VAR. The multivariate version of this test, for a vector X of class VAR for instance is var.ser-serial.test(X,lags.pt=16,type=PT.adjusted) ### in the vars package Would any of you suggest me how to modify this to test for

Re: [R] i can't read large NETCDF file like CRU

2011-12-12 Thread David William Pierce
On Mon, Dec 12, 2011 at 2:19 AM, tony333 tony33...@hotmail.com wrote: i use library(ncdf) to read this file as follow library(ncdf) sst.nc = open.ncdf(title) lonall = get.var.ncdf(sst.nc,'lon') latall = get.var.ncdf(sst.nc,'lat') precip = get.var.ncdf(sst.nc,'pre') close(sst.nc) if i use

[R] Automated Regressions

2011-12-12 Thread ryanSt
Hello R-Experts, I've got a question, concerning the automation of a number of regressions (lm) with the help of a loop (for i in ). The situation is as follows (the code follows after that): I have my data in an access database. I have historical data for 2000 parts, for each of this parts

[R] Polygon

2011-12-12 Thread Komine
Hi everybody, I have a matrix with 3 columns (Date, MeanArea and SdArea). I want to draw a figure showing the variable MeanArea in terms of the Date. But instead to use the variable SdArea as bar error, I want to use “polygon error”. I use this code but the output does not seem good.

Re: [R] [R-SIG-Finance] Question about fitting seasonal ARIMA in R?

2011-12-12 Thread Zachary Mayer
Hi Michael, As far as I know, there is no Arima function in R that allows multiple seasonal patterns. There's 2 approaches you can take: 1. Use a matrix of dummy variables (e.g. jan/feb/mar/...dec and mon/tues/wed/...sun) as an xreg term in the arima function. 2. Use a matrix of Fourrier terms

Re: [R] not complete character in csv file

2011-12-12 Thread threshold
Indeed in txt it looks fine. Anyway, I must stay without 0 because csv is THE format. I got another question. why for Table - matrix(0,8,3) day = Monday Table[1,1]=day all other elements become characters too? Thanks, robert -- View this message in context:

Re: [R] no non-missing arguments to max; returning -Inf

2011-12-12 Thread R. Michael Weylandt michael.weyla...@gmail.com
The dput() command is essential in doing so. Michael On Dec 11, 2011, at 8:50 AM, Tal Galili tal.gal...@gmail.com wrote: Yes - E-mail us reproducible code... Contact Details:--- Contact me: tal.gal...@gmail.com |

Re: [R] Color2D.matplot uniform color range

2011-12-12 Thread jalfaro
Hi Jim, Thanks so much for your help. I have read several of your responses on this mailing list and they have helped me out quite a bit as I have gotten more and more used to R. I am still a little confused here by your response. I think you understood my requirements correctly. In your

Re: [R] not complete character in csv file

2011-12-12 Thread R. Michael Weylandt
Matrix (which is secretly a vector) can only have one mode (numeric/factor/character/etc.) for all its elements. If you need multiple types, go to a data frame Michael On Mon, Dec 12, 2011 at 10:39 AM, threshold r.kozar...@gmail.com wrote: Indeed in txt it looks fine. Anyway, I must stay

Re: [R] [solved] littler: Use for batch processing of data sets: How to pass filename?

2011-12-12 Thread Paul Menzel
Am Montag, den 12.12.2011, 09:41 -0500 schrieb R. Michael Weylandt : Why can't you just replace temp/data with filename (no quotes)? I'm not sure I get the question... … no I am feeling silly and I do not know where I screwed up before. Here is the full working example. #!/usr/bin/env

Re: [R] shorter way of coding

2011-12-12 Thread Mintewab Bezabih
Dear Paul and Sarah Thanks for the suggestion. I have provided my data here in to make the results reproducable. I am actually trying to do interpoliation of climate data where x1 and x2 are my latitude and longitude and sum64-sum 368 are my rainfall observations which I need to regress

Re: [R] shorter way of coding

2011-12-12 Thread Sarah Goslee
That's not a reproducible example. Paul suggested a list of formulas, but I recommended creating a list of y variables. In your attempt, you didn't include the y in the name of the dependent variable; that's probably why it doesn't work. Look at this: y.list - list(y1=runif(10), y2 -

Re: [R] For loop indicies

2011-12-12 Thread Thomas Chesney
Ah. I did a Silly Thing, and thank you for all the responses helping me track it down. The issue lay not in the for (i in 1:C) but in the line VectorName[i] - ... That's the one that didn't like 0. Thomas From: Enrico Schumann [enricoschum...@yahoo.de]

[R] unlist() list of dates

2011-12-12 Thread Ana
how can I keep the date info after doing unlist to a list of dates? I have a list of dates were observations were made for each station in each month list.obs[[station]][month] [1] 1979-01-01 1979-01-10 1979-01-25 [1] 0 1 2 3 when i try to unlist i loose the date info. what

Re: [R] unlist() list of dates

2011-12-12 Thread William Dunlap
There are methods of the c function for things of class POSIXlt and Date so do.call(c, dataList) works instead of unlist: dateList - list(LastWeekend=as.POSIXlt(sprintf(2011-12-%d, 10:11)), + Today=as.POSIXlt(2011-12-12)) z - do.call(c, dateList) z LastWeekend1

Re: [R] Overlaying density plot on forest plot

2011-12-12 Thread Michael Dewey
At 15:09 11/12/2011, you wrote: Dear Michael, Thanks for the email. This is the kind of forest plot, I want to replicate http://www.biomedcentral.com/1471-2334/11/122/figure/F2 It would be helpful to cc to r-help in case someone else there knows better. If you follow my suggestion you get a

Re: [R] unlist() list of dates

2011-12-12 Thread Ana
Thanks! Another question also related to the same type of files: How can I transform it into a time series as.ts() I also endup having the same problem, the dates are transformed into a list of numbers My file looks like this datesval 12001-01-121.2 22001-02-12

Re: [R] Automated Regressions

2011-12-12 Thread B77S
I don't know why you had c in a(1:2000)) c is a function see ?c ... and you want a (the row number in SQL_Code) to change with each iteration in the loop. Perhaps this might work (I'm not saying this is the best option, just a potential fix for what you have): for (a in 1:2000) { Dataset -

Re: [R] Automated Regressions

2011-12-12 Thread Frederic Andrieu
Hi Ryan, My name is Frederic Andrieu and I work for Mango Solutions in the UK. It looks like you have swapped the a and c in this for loop statement: This for (c in a(1:2000)) { should be this for (a in c(1:2000)) { Which is why the for loop is not running, I would suggest something like this:

[R] Improve a browse through list items - Transform a loop to apply-able function.

2011-12-12 Thread Robin Cura
Hello, I'm currently trying to convert a slow and ugly script I made, so that it's faster and can be computed on a computer grid with the multicore package. My problem is that I don't see how to turn some loops into an apply-able function. Here's an example of my loops : I got a list of

[R] categorical variables

2011-12-12 Thread Brian Jensvold
I am doing a logistic regression, and by accident I included a field which has the 2digit abbreviation for all 50 states labeled st. I was surprised to see that the glm did not come up with an error message but instead appears to have automatically broken down this field into individual fields

Re: [R] shorter way of coding

2011-12-12 Thread Mintewab Bezabih
Dear Paul and Sarah Thanks for the suggestion. I have provided my data here in to make the results reproducable. I am actually trying to do interpoliation of climate data where x1 and x2 are my latitude and longitude and sum64-sum 368 are my rainfall observations which I need to regress

Re: [R] not complete character in csv file

2011-12-12 Thread threshold
right, Table - data.frame(matrix(0,8,3)) day = Monday Table[1,1]=day Table[1,2]=3 works, thanks a lot. robert -- View this message in context: http://r.789695.n4.nabble.com/not-complete-character-in-csv-file-tp4185785p4186639.html Sent from the R help mailing list archive at Nabble.com.

Re: [R] Lagged values problem requiring short solution time

2011-12-12 Thread Rui Barradas
Kevin, I'm sorry, but my code has a bug The correction is: 1) delete the two lines with 'ix' 2) replace them with for(i in 2:n) if(abs(x[i] - x[i-1]) delta) x[i] - x[i-1] + delta That's it. The problem is that it's back to slowness. Sorry, once again, Rui Barradas

[R] Creating appropriate time axis for data

2011-12-12 Thread Tony Stocker
Hello, I am dealing with data stored in a database as a 'time' object. I export the data from the database to a text file and utilize the 'time_to_sec()' function of the database to convert the human readable time (HH:MM:SS) to seconds so that I can use R to do analysis and create charts of the

Re: [R] Lagged values problem requiring short solution time

2011-12-12 Thread Rui Barradas
Kevin, Your problem seems to have three restrictions: (1) abs(x[i] - x[i-1]) = delta (2) y[i] = x[i] and (3) minimize sum(y-x). If this is the case I believe I have a better solution, with a smaller sum and in much less time. The problem is restriction (2). If the diffs are negative you can't

Re: [R] multiple comparison of interaction of ANCOVA

2011-12-12 Thread Richard M. Heiberger
... On Mon, Dec 12, 2011 at 7:00 AM, Jinsong Zhao jsz...@yeah.net wrote: Apart from the data set here, is there a way to do multiple comparison on the interaction of one way analysis of covariance? Interaction in ancova usually means the slopes are different. ... BTW, when loading HH

Re: [R] k-folds cross validation with conditional logistic

2011-12-12 Thread Terry Therneau
--begin inclusion -- I have a matched-case control dataset that I'm using conditional logistic regression (clogit in survival) to analyze. I'm trying to conduct k-folds cross validation on my top models but all of the packages I can find (CVbinary in DAAG, KVX) won't work with clogit models. Is

[R] Variables from a Dataframe

2011-12-12 Thread Jose Bustos Melo
Hello everyone, I want make a variable selection  from a dataframe, but when I build this new object (using cbind) the new table (which is a matrix) I lost all the original factor names in the variables. I get 1,2,3 Someone would be so kind and tell me if there's is a ny way to get

Re: [R] Variables from a Dataframe

2011-12-12 Thread Sarah Goslee
Without a reproducible example it's impossible to say for certain, but I'd try cbind.data.frame() instead of cbind(). You need to have a data frame, not a matrix, for the result. Sarah On Mon, Dec 12, 2011 at 2:44 PM, Jose Bustos Melo jbustosm...@yahoo.es wrote: Hello everyone, I want make a

Re: [R] Variables from a Dataframe

2011-12-12 Thread Paul Menzel
Dear Jose, Am Montag, den 12.12.2011, 19:44 + schrieb Jose Bustos Melo: Hello everyone, I want make a variable selection from a dataframe, but when I build this new object (using cbind) the new table (which is a matrix) I lost all the original factor names in the variables. I get

[R] Help with charting time in seconds as HH:MM:SS on charts

2011-12-12 Thread Tony Stocker
Hello, I am dealing with data stored in a database as a 'time' object. I export the data from the database to a text file and utilize the 'time_to_sec()' function of the database to convert the human readable time (HH:MM:SS) to seconds so that I can use R to do analysis and create charts of the

Re: [R] Orthoblique rotation on eigenvectors (SAS VARCLUS)

2011-12-12 Thread larrydag
I really like your varclus function Frank. I have a question about the quartimax rotation of the 1st two eigen vectors as the SAS VARCLUS algorithm dictates. According to the SAS user guide example of VARCLUS the only thing needed to perform the cluster analysis is the variable correlation

Re: [R] Variables from a Dataframe

2011-12-12 Thread Sarah Goslee
I'm glad that worked for you. It's a good idea to reply to the list, as well as me, so that there's public acknowledgment of a working solution, and so that the answer appears in the archives. Sarah On Mon, Dec 12, 2011 at 2:56 PM, Jose Bustos Melo jbustosm...@yahoo.es wrote: Thank you

Re: [R] Variables from a Dataframe

2011-12-12 Thread William Dunlap
I would recommend using data.frame(var1, var2, ...) and not cbind.data.frame(var1, var2, ...). I consider it bad form to directly call a method of a generic function. Sometimes it leads to errors, as a method should be free to assume that its inputs are of the class it was declared to accept.

Re: [R] Help with charting time in seconds as HH:MM:SS on charts

2011-12-12 Thread Uwe Ligges
Please post only once! Uwe Ligges On 12.12.2011 20:32, Tony Stocker wrote: Hello, I am dealing with data stored in a database as a 'time' object. I export the data from the database to a text file and utilize the 'time_to_sec()' function of the database to convert the human readable time

Re: [R] Creating appropriate time axis for data

2011-12-12 Thread Uwe Ligges
On 12.12.2011 17:44, Tony Stocker wrote: Hello, I am dealing with data stored in a database as a 'time' object. I export the data from the database to a text file and utilize the 'time_to_sec()' I get time_to_sec Error: object 'time_to_sec' not found If it is in a package, please tell

Re: [R] categorical variables

2011-12-12 Thread Uwe Ligges
On 12.12.2011 19:36, Brian Jensvold wrote: I am doing a logistic regression, and by accident I included a field which has the 2digit abbreviation for all 50 states labeled st. I was surprised to see that the glm did not come up with an error message but instead appears to have automatically

Re: [R] calculating logit parameters (odd ratio is exactly one or zero)

2011-12-12 Thread Uwe Ligges
1. The formula you used is not for a logistic but an ordinal regression (since you are using the default gaussian family rather than family=binomial or whatever. 2. R (nor any other software) can deal with perfect separation (nor quasi-separation) of classes, since the problem is not well

Re: [R] categorical variables

2011-12-12 Thread David Winsemius
On Dec 12, 2011, at 3:38 PM, Uwe Ligges wrote: On 12.12.2011 19:36, Brian Jensvold wrote: I am doing a logistic regression, and by accident I included a field which has the 2digit abbreviation for all 50 states labeled st. I was surprised to see that the glm did not come up with an error

Re: [R] calculating logit parameters (odd ratio is exactly one or zero)

2011-12-12 Thread David Winsemius
On Dec 12, 2011, at 3:51 PM, Uwe Ligges wrote: 1. The formula you used is not for a logistic but an ordinal regression (since you are using the default gaussian family rather than family=binomial or whatever. this this then produce one version of the Armitage linear test of trend?

[R] windrose color ramp issue

2011-12-12 Thread Adrienne Wootten
Greetings! I'm having an issue with the windrose produced by the windrose function from the circular package. For our weather stations in North Carolina I'm helping with a script which takes hourly wind speed and direction data to create windroses for our end users. One of the stations in the

[R] Boxplot of multiple vectors with different lengths

2011-12-12 Thread Ryan Utz
Hello, I'm attempting to write a code that automatically imports data from different files (with different lengths-just one variable) and makes tidy box plots for comparison. I can successfully import the data and create a list of the vectors I want to compare. But I cannot, for the life of me,

[R] Formatting probability data to produce confusion matrix for binary data for logistric regression

2011-12-12 Thread Sally Ann Sims
Hello R folks, I’m looking to produce a confusion matrix using the command: cmx(PData,threshold=0.49,na.rm=FALSE) for a logistic regression model (1 is habitat, 0 is nonhabitat). To compile my PData data file (csv file) (as in the example above), I’m using the output of the predict(glm)

Re: [R] Boxplot of multiple vectors with different lengths

2011-12-12 Thread Sarah Goslee
Hi, On Mon, Dec 12, 2011 at 4:24 PM, Ryan Utz utz.r...@gmail.com wrote: Hello, I'm attempting to write a code that automatically imports data from different files (with different lengths-just one variable) and makes tidy box plots for comparison. I can successfully import the data and create

Re: [R] Boxplot of multiple vectors with different lengths

2011-12-12 Thread Thomas Adams
Ryan, I think you could do what you want by having the vector data written to separate files; then create a file containing the individual file names. In R, read the file containing the list of file names and loop through this reading in the individual vector files. Maybe this is an inelegant,

Re: [R] not complete character in csv file

2011-12-12 Thread Rolf Turner
On 13/12/11 04:39, threshold wrote: Indeed in txt it looks fine. Anyway, I must stay without 0 because csv is THE format. It may well be the case that csv is THE format, but csv is not the problem. Excel is the problem. The solution is: Don't use Excel!!! (This is excellent advice in any

Re: [R] Boxplot of multiple vectors with different lengths

2011-12-12 Thread Bert Gunter
Sorry -- previous versiuon prematurely sent. Full version is: Yikes!  You should never have to do this sort of thing (writing stuff out to files, etc.) What is wanted, I believe, is ?do.call as in do.call(boxplot, z) where z is list(a,b,c)   as Sarah described. However, I think you

Re: [R] Boxplot of multiple vectors with different lengths

2011-12-12 Thread Thomas Adams
Bert, I may be mistaken, but I thought Ryan wrote write code that automatically *imports data* from different files (with different lengths-just one variable), so, I was referring to doing something with the data before it gets into R. I understand that one should not need to write out data and

[R] question about fixed and random factors in aov

2011-12-12 Thread Szymek Drobniak
Dear R users, I know that it was considered many times but having searched through dozens of posts I have only added to my confusion. My question is - is it possible to correctly analyse simple mixed (fully)crossed (factorial) 2-way ANOVA? Assume we have factor A (fixed) and B (random). In the

Re: [R] Boxplot of multiple vectors with different lengths

2011-12-12 Thread Vining, Kelly
Ryan, Do you necessarily have to use list? Have you tried the usecols=TRUE option in boxplot? Cheers, --Kelly V. -Original Message- From: r-help-boun...@r-project.org [mailto:r-help-boun...@r-project.org] On Behalf Of Ryan Utz Sent: Monday, December 12, 2011 1:24 PM To:

[R] Maximum discrepancy palette

2011-12-12 Thread Etienne B. Racine
I'm looking for a palette that would maximize the discrepancy with neighbouring elements. I have a raster image of objects tagged with integers. I'd like to highlight the different objects by using a palette that would maximize this difference with neighbours as close numbers tend to be

Re: [R] Boxplot of multiple vectors with different lengths

2011-12-12 Thread Ryan Utz
Thanks for the help, everyone. However, no solution yet... My vectors names are neatly stored in a character vector of their own. This happens based on how they were imported. So, say I have vectors a, b and c, all with numeric-only contents. Then I have another vector, say z, that looks like

Re: [R] Boxplot of multiple vectors with different lengths

2011-12-12 Thread Peter Ehlers
On 2011-12-12 15:14, Ryan Utz wrote: Thanks for the help, everyone. However, no solution yet... My vectors names are neatly stored in a character vector of their own. This happens based on how they were imported. So, say I have vectors a, b and c, all with numeric-only contents. Then I have

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