Re: [R] running saved scripts
Jiong Zhang, PhD schrieb: > Hi All, > > I have a rather naive question. I need to run some simple calculations > such as read.table, resid, and quantile on a data file. How can I save > these commands in a text file and ask R to run this text file? Thanks. > > There is a very comfortable editor including run functions (run all, run marked, run until window end and run line by line) available: http://www.sciviews.org/Tinn-R/ And you can use the R-Editor (in the Menu: File-> new script) There you can run the marked code or line by line with STGR R Knut __ R-help@stat.math.ethz.ch 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, reproducible code.
[R] read.xls problem
Hi to all, I have a strange problem There was a Excel file with 5 sheets I deleted sheet 2 and 4. as all the times before I tried to read the sheets with data1<- read.xls(excelfile_2,sheet=1, as.is = TRUE ,verbose=FALSE, perl="C:/perl/bin/perl.exe") data2<- read.xls(excelfile_2,sheet=2, as.is = TRUE ,verbose=FALSE, perl="C:/perl/bin/perl.exe") data3<- read.xls(excelfile_2,sheet=3, as.is = TRUE ,verbose=FALSE, perl="C:/perl/bin/perl.exe") but only the folloing code reads the sheets well data1<- read.xls(excelfile_2,sheet=1, as.is = TRUE ,verbose=FALSE, perl="C:/perl/bin/perl.exe") data3<- read.xls(excelfile_2,sheet=3, as.is = TRUE ,verbose=FALSE, perl="C:/perl/bin/perl.exe") data5<- read.xls(excelfile_2,sheet=5, as.is = TRUE ,verbose=FALSE, perl="C:/perl/bin/perl.exe") Does anybody know whether this is normal? I never had this problem before. And if it is normal I wonder about how to find the sheet numbers Regards Knut __ R-help@stat.math.ethz.ch 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, reproducible code.
[R] Is Landau-H available
Does anybody knows whether Landau-H index is available in ? I did not found anything about with r Regards Knut __ R-help@stat.math.ethz.ch 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, reproducible code.
Re: [R] Sorting dataframe by different columns
maybe this page could give you some hints: http://www.ats.ucla.edu/STAT/r/faq/sort.htm Regards Knut __ R-help@stat.math.ethz.ch 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, reproducible code.
Re: [R] Barplots: Editing the frequency x-axis names
Sorry I forgot the "" around the dates
x <- c(dates("01/31/03"),dates("06/30/07"))
But I think your problem is the plot area.
You must first define the plot area with type ="n" for no plotting,
afterwards you could fill in the data.
I did this with times() but I am afraid the displayed dates/times will
depend on your plot area and the settings with par()
did you read the instructions for plot and par already?
Regards Knut
have a look to ?plot and to ?par
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Re: [R] Barplots: Editing the frequency x-axis names -doouble post
Sorry for double posting - was wrong e-mail adress , thougt this one will run into Spam filter __ R-help@stat.math.ethz.ch 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, reproducible code.
Re: [R] Barplots: Editing the frequency x-axis names
Tom.O schrieb: > Hi > I have a timeSeries object (X) with monthly returns. I want to display the > returns with a barplot, which I can fix easily. But my problem is labaling > the x-axis, if I use the positions from the timeseries It gets very messy. I > have tried rotating and changing the font size but it doesn't do the trick. > I think the optimal solution for my purpose is too only display every second > or third date, pherhaps only use every 12 month. But how do I do that? > > Thanks Tom > I think you could use: library(chron): f.e x <- c(dates(02/27/92),dates(02/27/95)) y <- c(10,50) plot(x, y) Regards Knut __ R-help@stat.math.ethz.ch 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, reproducible code.
Re: [R] order of values in vector
Tord Snäll schrieb: > Dear all, > I would like to get the order of the values in a vector. I have tried > rank(), order() and searched the archive, though without success. maybe this page could give you some hints: http://www.ats.ucla.edu/STAT/r/faq/sort.htm Regards Knut __ R-help@stat.math.ethz.ch 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, reproducible code.
Re: [R] Plot window - save as Postscript question
Uwe Ligges schrieb: > > Yes: Use the postscript() device explicitly and define the width and > height in the function call. > > I tried it before but I think I did a mistake: Does the width and height command not work with If paper="letter" ? The plot was cutted at the upper boarder of the "paper" I tried it with paper="special" and it worked now Best regards Knut __ R-help@stat.math.ethz.ch 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, reproducible code.
[R] Plot window - save as Postscript question
R 2.4.0 for Windows The following plot appears as a squared window (as all r-plots) Not all subtitles are visible, but all subtitle will appear, when changing the aspect ratio of the plot window with the mouse to a wide format. But does not work when using the save as postscript menu item from the plot window. is there any solution for that? opar <- par(mfrow = c(2,2), oma = c(0, 0, 1.1, 0)) mp <- barplot2(VADeaths) # default mp <- barplot2(VADeaths) # default mp <- barplot2(VADeaths) # default mp <- barplot2(VADeaths) # default par(opar) Regards Knut __ R-help@stat.math.ethz.ch 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, reproducible code.
Re: [R] axis and times() problem
Thank you for your answer > Actually I think there may be a bug here since the axes do not intersect. > Should I report this or did you report it already as a possible bug? __ R-help@stat.math.ethz.ch 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, reproducible code.
[R] axis and times() problem
Dear R-Group,
the first example is working as expected, but I need the plot without
the box,
normally no problem, but I am not able to get the x-axis formatted as
times with the axis, command.
I tried a lot of things, nothing was working so I used the most easy
axis command in the second example here
# working
library(chron) # for times()
library(graphics)# for axis
par(cex=1.2,lwd=1)
x <- c(times("12:15:00"),times("15:30:00"))
y <- c(1,5)
plot(x, y, type="n",adj=0, asp=0, xlab="", ylab="",font.axis=2,yaxt='n')
# axis() command problem:
par(cex=1.2,lwd=1)
x <- c(times("12:15:00"),times("15:30:00"))
y <- c(1,5)
plot(x, y,axes=FALSE, type="n",adj=0, asp=0, xlab="",
ylab="",font.axis=2,yaxt='n')
axis(1)
Maybe anybody could help me to disable the box around the plot and get
the x-axis formatted as times
Regards Knut
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Re: [R] Switch and integer
David Barron schrieb: > > If the value of EXPR is an integer between 1 and nargs()-1 then the > corresponding element of ... is evaluated and the result returned. > Thank you, I wondered about the > integer between 1 and nargs()-1 and the example from the help file for(i in c(-1:3,9)) print(switch(i, 1,2,3,4)) No see I that the 1,2,3,4 is the output not the value, but it's not very clear for me ho it works. I will try to find it out ... The switch for Integer is very different from C++ or Pascal .. maybe this was the reason for the problem. Regards Knut __ R-help@stat.math.ethz.ch 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, reproducible code.
[R] Switch and integer
I searched the help list and the manual, but I do not find my mistake.
Switch is working with character , with integer, but not in the third
example
Regards Knut
count1 <- 0
test
=c("3","9","3","9","3","9","8","9","8","9","8","9","3","9","3","9","5","9","3","9","1","2","7","9","3","9","1","1","2","2","3","9","2","1","2","5","9","8","9","1","2")
count1 <- "0"
for (i in 1:length(test))
switch (EXPR=test[i],
"5" = print(test[i]),
"6" = print(test[i]),
"7" = print(test[i]),
"8" = print(test[i]),
"9" = print(test[i])
)
count1
# example from helpfile
for(i in c(-1:3,9)) print(switch(i, 1,2,3,4))
# not working
test
=c(3,9,3,9,3,9,8,9,8,9,8,9,3,9,3,9,5,9,3,9,1,2,7,9,3,9,1,1,2,2,3,9,2,1,2,5,9,8,9,1,2)
count1 <- 0
for (i in 1:length(test))
switch (EXPR=test[i],
4 = count1 <- count1 +1,
5 = count1 <- count1 +1,
6 = count1 <- count1 +1,
7 = count1 <- count1 +1,
8 = count1 <- count1 +1
)
count1
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[R] [OT] sorry for sending two mails ... and thank's for the answers
Does anybody know why this mail did not appear for more than 6 hours? I thought that my URL might be at any blacklist, so I created a web.de account and resent the mail after a couple of hours. Regards Knut __ R-help@stat.math.ethz.ch 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, reproducible code.
[R] how to create data.frame with dynamic count of values
Hello R-Group
I found how to fill the data.frame ->
http://finzi.psych.upenn.edu/R/Rhelp02a/archive/70843.html
N1 <- rnorm(4)
N2 <- rnorm(4)
N3 <- rnorm(4)
N4 <- rnorm(4)
X1 <- LETTERS[1:4]
###
nams <- c(paste("N", 1:4, sep = ""), "X1")
dat <- data.frame(lapply(nams, get))
names(dat) <- nams
dat
But I need also to create a dynamic count of numeric vectors
items = 15
VarSize <-10
N1 <- rep(0,VarSize)
N2 <- rep(0,VarSize)
N3 <- rep(0,VarSize)
N4 <- rep(0,VarSize)
N5 <- rep(0,VarSize)
...
N15<- rep(0,VarSize) # 15 items
Thank you in advance
Knut
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[R] how to create data.frame with dynamic count of values
Hello R-Group
I found how to fill the data.frame ->
http://finzi.psych.upenn.edu/R/Rhelp02a/archive/70843.html
N1 <- rnorm(4)
N2 <- rnorm(4)
N3 <- rnorm(4)
N4 <- rnorm(4)
X1 <- LETTERS[1:4]
###
nams <- c(paste("N", 1:4, sep = ""), "X1")
dat <- data.frame(lapply(nams, get))
names(dat) <- nams
dat
But I need also to create a dynamic count of numeric vectors
items = 15
VarSize <-10
N1 <- rep(0,VarSize)
N2 <- rep(0,VarSize)
N3 <- rep(0,VarSize)
N4 <- rep(0,VarSize)
N5 <- rep(0,VarSize)
...
N15<- rep(0,VarSize) # 15 items
Thank you in advance
Knut
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Re: [R] (g)lm ordinal or scaled values?
Liaw, Andy schrieb: >There are good online materials that discuss these basic linear models in R >(e.g., http://www.stat.lsa.umich.edu/~faraway/book/), and you would be >well-served to peruse them instead of bumping your head on the wall over >these confusions. > > :-) will read them thx .. I am trying to reproduce the SPSS results of SPSS in R now for a couple of months, because I do not trust in click and view results from SPSS. All former results did match perfect. But now there was a very big "bump" , because the results don't mach and I recogniced that I was right to so. Regards Knut > > __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] (g)lm ordinal or scaled values?
Liaw, Andy schrieb: >Ordinal variables should be stored as ordered factors in R. See ?ordered. > thnk`s for your reply. I tried to store as ordered factors var <- as.ordered(var2) but if I am calling the lm(dependent~var) I get a long list of values. If I call var <- as.numeric(var2) lm(dependent~var) then I get: Residuals: Min 1Q Median 3Q Max -0.93563 0.01378 0.16272 0.25546 0.57862 Coefficients: Estimate Std. Error t value Pr(>|t|) (Intercept) 1.795130.02787 64.412 < 2e-16 *** mean-0.281020.05993 -4.689 4.66e-06 *** the SPSS call and Result is: SPSS (13) Analyse General Linear Model Univariate Dependent Variable -> Dependent Fixed Factors -> var2 OK Tests of Between-Subjects Effects Dependent Variable: dependent | --- | - | --- | - | | | | Source | Type III Sum of Squares | df | Mean Square | F | Sig. | | --- | - | --- | - | | | | Corrected Model | 11,269(a) | 41 | ,275 | 1,668| ,012 | | --- | - | --- | - | | | | Intercept | 361,340 | 1 | 361,340 | 2193,088 | ,000 | | --- | --- | --- | --- | | | | var2| 11,269 | 41 | ,275| 1,668| ,012 | | --- | --- | --- | --- | | | | Error | 31,964 | 194 | ,165 | | | | --- | --- | --- | --- | | | | Total | 773,000 | 236 | | | | | --- | --- | --- | --- | | | | Corrected Total | 43,233 | 235 | | | | | --- | --- | --- | --- | | | a R Squared = ,261 (Adjusted R Squared = ,104) Maybe anybody is able to show me the difference between SPSS and R calls because the P value ic complete different The url for the Data (if anybody would like to try) http://biostatistic.de/temp/testr.csv Regards Knut __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] (g)lm ordinal or scaled values?
There is a difference in the p- value from 0.000 and 0.012 when I am using SPSS. 0.000 when I am using the independent variable as scaled 0.012 if I am using the variable as ordinal. The independent variable is ordinal but it seems that R is using the variable as an scaled, because the P- Value is computed with 4.66e-06 so I am not sure which description I am misunderstanding: SPSS;: Covariates. Scale predictors should be selected as covariates in the model. Within combinations of factor levels (or cells ), values of covariates are assumed to be linearly correlated with values of the dependent variables. (A variable can be treated as scale when its values represent ordered categories with a meaningful metric, so that distance comparisons between values are appropriate. Examples of scale variables include age in years and income in thousands of dollars.) Factors. Categorical predictors should be selected as factors in the model. Each level of a factor can have a different linear effect on the value of the dependent variable.(A variable with a discrete number of values; an ordinal or nominal variable. Categorical variables are often used as grouping variables or factors.) The data : http://biostatistic.de/temp/testr.csv lm.data<-lm( dependent ~ var2,family = gaussian) I don't know whether anybody could explain me the difference between SPSS and R results but if there are different results then one of them is wrong :-( And I do not know which of them. I hope I explained the problem understandable Regards Knut __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] factor to real - best way to convert
I have got factor from read.xls: > is(factor_value) [1] "factor" "oldClass" [288] -0.32 0.180.180.18-0.32 0.180.68 [295] 0.680.18 43 Levels: -0.05 -0.13 -0.15 -0.18 -0.20 -0.26 ... 1.33 If I am using the funciton as.real(factor_value) I get [271] 17 17 8 22 8 8 17 17 17 17 17 17 17 17 23 7 35 7 [289] 23 23 23 7 23 35 35 23 So I used as.real(as.matrix(factor_value)) The result is as expected: [271]NANA -0.35 0.15 -0.35 -0.35NANANA [280]NANANANANA 0.18 -0.32 0.68 -0.32 [289] 0.18 0.18 0.18 -0.32 0.18 0.68 0.68 0.18 Ok I found the way to convert with try and error, but I do not understand the way - and I found the hint in the fullref_manual: x<- as.numeric(levels(factor_value))[factor_value]) Ok much better, but I would not be able to find the way from the ?as.numeric help page. Both versions are complete struggled in my mind. maybe anybody is albe to write some hints for me. with regards Knut __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] Traffic on R-Help Mailing List
I do not know how many user are not able to receive the messages. It seems that only messages from the list server are not delivered to the mailserver. I am able to receive private mails and I talked with the sysadmin of the mailserver. He told me that he is not able to found any new mail from stat.math.ethz.ch, neither in the spamfilter nor in the log files. I will read with the web interface your answers - if there is any solution. One question: Is it a possibility that my domain is blocked from sending e-mails because the e-mails of the last 2 weeks were bounced back? Regards Knut __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] Traffic on R-Help Mailing List
No seems that there is an other problem with the spam filter. Another guy told me that they have the same problem. Some of the mails will delivered, most of the mails not Regards Knut __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] Traffic on R-Help Mailing List
Problem solved, it was a home made problem. My mailbox was flooded with spam. The mailbox was open for all addresses coming to the URL [EMAIL PROTECTED] There were no problem the last year but now the spammer found the open mail account. We changed to defined addresses and mistyped the r-help e-mail address. Thanks a lot Knut __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] Traffic on R-Help Mailing List
I am amazed that the traffic decreased the last days. I am afraid that there is any problem with the spamfilter of my provider. There are not messages from march 04rd until march 15th, Two messages from march 16 and nothing else since march 03rd Please answer also with PM to the mail address. I hope I will solve the problem. Thank you Knut __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] Bioconductor package on linux machine
Hi together,
we received a question about the bioconductor package,
maybe anybody could help the guy and I will deliver the message over our
forum to him.
If this way is allowed ...
Regards Knut
Here the question:
Hello,
I have installed R on a linux machine. I have then installed the
biocLite.R package from bioconductor.
I wanted to install a few other packages - hgu133plus2cdf, rma .
I downloaded the source files and installed in the directory
/usr/lib64/R/library
but when i try using those files, they show as not installed.
Anybody encounter this problem before OR is there something else i am
doing wrong?
Following is the sequence of stpes i used first:
1) library(affy)
2) pcpc <-
ReadAffy(sampleNames=c("107762","110662","110682","110792","110802","111301","111611","111781","111801","154272","160881"))
3) pc <- rma(pcpc)
Error in library("hgu133plus2cdf", lib.loc = NULL, character.only = TRUE) :
'hgu133plus2cdf' is not a valid package -- installed < 2.0.0?
I tried all this when logged in as root.
Any help will be appreciated.
thank you all..
sincerely
Kiran
Univ of Chicago
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Re: [R] showing the integrated number by point size
Marc Schwartz (via MN) schrieb:
>On Fri, 2006-02-17 at 17:33 +0100, Knut Krueger wrote:
>
>
>>Is there any function to show the points like this example of SPSS?
>>
>>http://biostatistic.de/temp/reg.jpg
>>
>>The point size should represent the number of data at this point.
>>
>>with regards
>>Knut Krueger
>>
>>
>
>There are a couple of functions in CRAN packages I believe that will do
>bubble plots.
>
To know the name of the function is always the problem before i am albe
to seachr for :-(
>
>You might want to do:
>
> RSiteSearch("Bubble Plot")
>
found the solution , thx
>
>which should help.
>
>A better option from a visualization perspective would be
>
> ?sunflowerplot
>
>
Maybe, but I was told to search for bubbles. I will suggest the sunflowerplots.
Thank you very much
Knut Krueger
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[R] showing the integrated number by point size
Is there any function to show the points like this example of SPSS? http://biostatistic.de/temp/reg.jpg The point size should represent the number of data at this point. with regards Knut Krueger __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] some EPS rotated in journal preview
Prof. Brian Ripley schrieb:
> The problem is a well-known one in viewers looking at whole pages,
> especially PS -> PDF converters. R figures are particularly
> vulnerable as they have text running both horizontally and vertically
> (with normal axes).
>
> Please do follow exactly the advice on the postscript help page.
>
> The postscript produced for a single R plot is EPS (_Encapsulated
> PostScript_) compatible, and can be included into other documents,
> e.g., into LaTeX, using '\includegraphics{}'. For use
> in this way you will probably want to set 'horizontal = FALSE,
> onefile = FALSE, paper = "special"'.
>
> If you have done that, suggest to your publisher that they turn auto
> rotation off.
There are the reproducible codes (from the help file). The first one
with the long text is rotated the second is not rotated.
Seems that they rotate the page, if the text of the y-axes is longer
than the text of the x-axes.
Are you able to see any other reason for the rotation.
I will contact the journal again, if there is no other reason especially
of the R-code.
Regards
Knut Krueger.
postscript("c:/r/test/regline2.eps",horizontal = FALSE,onefile=FALSE,
paper = "special" ,pointsize=20,
height=8,width=8,family = "Helvetica", font = "Helvetica")
data(Davis)
attach(Davis)
mod.M<-lm(repwt~weight, subset=sex=="M")
mod.F<-lm(repwt~weight, subset=sex=="F")
plot(weight, repwt, pch=c(1,2)[sex],ylab="
",xlab=" ")
reg.line(mod.M)
reg.line(mod.F, lty=2)
dev.off()
postscript("c:/r/test/regline3.eps",horizontal = FALSE,onefile=FALSE,
paper = "special" ,pointsize=20,
height=8,width=8,family = "Helvetica", font = "Helvetica")
data(Davis)
attach(Davis)
mod.M<-lm(repwt~weight, subset=sex=="M")
mod.F<-lm(repwt~weight, subset=sex=="F")
plot(weight, repwt, pch=c(1,2)[sex])
reg.line(mod.M)
reg.line(mod.F, lty=2)
dev.off()
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Re: [R] some EPS rotated in journal preview
Knut Krueger schrieb: >I am trying to send a manuscript to a journal. >One of the figures build by R is in the right orientation and 4 are rotated >clockwise 90 deg in the preview. > > > So I realized that they rotated the Paper not the figure. I did not realize it because I did not set the Arcrobat reader to a full size view. So I saw only the rotaded figure not the hole page. maybe this is a better hint. And the hint from the journal: Please be advised that your eps figure file could have rotated in the built PDF due to its size which is larger than the paper. but I think that could not be the problem, because the figure is in the right rotation at the page. Regards Knut __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] some EPS rotated in journal preview
Marc Schwartz (via MN) schrieb:
>
>Unfortunately, it may have precluded my being able to replicate exactly
>what you are seeing, despite being intimately familiar with one of the
>functions (barplot2 ;-) that you are using.
>
>I did create some data that would generally fit what you are doing in
>both cases, however, probably because I am on Linux and you are on
>Windows, where both device and GS differences may be problematic, I
>could not get the second to be rotated relative to the page.
>
>
I think I described the problem not clearly or misunderstood your text.
There was no Figure rotated on my system - only in the PDF file from the
jurnal.
>If you want, e-mail me (offlist) the rotated EPS file that is created in
>the second case and I can use that to try to replicate the problem as
>well as review the EPS code to see if something sticks out.
>
>
>Under Linuxen, one can set:
>
> GS_OPTIONS="-dAutoRotatePages=/None"
> export GS_OPTIONS ...
>
I will try to findout this on windows system, but maybe I need some time.
Fist I must send the paper out to the journal. I will attach both Tiff
for the reviewers and eps for printing
.
>One other quick comment, which is relative to the readability of your
>code. Strategically placed spaces (" ") and line breaks would help
>tremendously. Especially since most e-mail clients will create line
>breaks at 72 chars (or similar), which can make the flow of the code
>difficult to review.
>
sure I only used copy and paste from the sriptfile and did noth thought
about the autowrap fo the e-mailclient.
thanks very much Knut
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Re: [R] some EPS rotated in journal preview
Marc Schwartz schrieb:
>On Wed, 2006-01-18 at 13:04 +0100, Knut Krueger wrote:
>
>
>One of the first things to do is to use 'onefile = FALSE', 'horizontal =
>FALSE' and paper = "special"'.
>
>
I am afraid the problem is on the journals side, because the "wrong"
postscript line (with "letter" )is working
and I changed the postscript options between both examples no change in
the behaviour of the pdf creator of the journal.
>This is in the Details section of ?postscript, which provides guidance
>on the creation of EPS files for inclusion in publications.
>
>I would try that to see if that provides a more consistent formatting of
>the plots.
>
>
>You don't indicate what you are using to create the manuscript itself
>(ie. Word, LaTeX, or ?) to help us in considering other possibilities
>(such as auto rotation).
>
>
The journal collects the figures once by once after the manuscript in
the original file format.
to solve the problem I could change it to tiff and submit it, but the
tiff files are look ing not as good as eps files.
>If the above does not help, please provide a reproducible example of the
>plot code and what you are using for the manuscript.
>
for your information:
the same problem occurs if I plot the data to the graphic device and use
the right button -> create postscript file
One is not rotated the others are rotated.
Hope the code helps without data:
colored.barlabels
<-function(x.barplot,x.barcolors,x.xrowlist,cexaxis=0.7,x.thick=F)
{
countmax<-length(x.xrowlist)
if (countmax > 0)
{
x.labels<-c(1:countmax)
for (count in 1:countmax)
{ for(count2 in 1:countmax)x.labels[count2]<-""
x.labels[count] <- x.xrowlist[count]
axis(1, at=x.barplot, tick=x.thick, labels=x.labels,
col.axis=x.barcolors[count], cex.axis=cexaxis)
}
}#end if (countmax > 0)
else "Message from colored.barlabel: Nothing to do"
}
postscript("c:/temp//fig04.ps",bg="transparent",onefile = TRUE
,pointsize=20,paper = "letter",height=8,width=8,horizontal=FALSE,family
= "Helvetica", font = "Helvetica")
barcolors <-
c(boxcolor1_3,boxcolor1_3,boxcolor1_3,boxcolor4,boxcolor5,boxcolor6,boxcolor7,boxcolor8,boxcolor9,boxcolor10)
xrow <-c(mean1,mean2,mean8,mean71,mean72,mean78,mean79,mean85,mean86,mean92)
sdrow<-c(sd1,sd2,sd8,sd71,sd72,sd78,sd79,sd85,sd86,sd92)
ci.l<-xrow-sdrow/2
ci.h<-xrow+sdrow/2
xrowlist <- c("Day 1","Day 2","Day 3","Day 4","Day 5","Day 6","Day
7","Day 8","Day 9","Day 10")
t.barplot<-barplot2(xrow,col =
barcolors,cex.lab=1.2,plot.ci=TRUE,ci.l=ci.l,ci.u=ci.h,ylab="mean time
till following in sec.")
barcolors <-
c("black","black","black","black","black","black","black","black","black","black",)
colored.barlabels(t.barplot,barcolors,xrowlist,0.7,F)
dev.off()
this is the not rotated figure
ant the follwoing is rotated
outl.text <-function(boxdata,input = FALSE)
{
countmax<-length(boxdata$out)
if (countmax > 0)
{
for (count in 1:countmax)
{ outl.name <-boxdata$out[count]
if (input==TRUE) outl.name <- readline(paste("text for value
boxplot Nr:",toString(boxdata$group[count])," - value:
",toString(boxdata$out[count]),": "))
text(boxdata$group[count],
boxdata$out[count],pos=4,cex=0.8,outl.name)
}
}#end if (countmax > 0)
else "Message from outl.text: no outlier"
}
postscript("c:/r/anschluss/plots/fig02.ps",height=8,width=8,bg="transparent",pointsize=20,horizontal
= FALSE,onefile = FALSE, paper = "special",family = "Helvetica", font =
"Helvetica")
day1<-Day_1
day2<-Day_2
day3<-Day_8
boxplot.names <-c("day 1","day 2","day 3") # Vektor für namen erzeugen
boxdata <- boxplot(day1,day2,day3,
col = boxcolor,names=boxplot.names,ylab="time till following in
sec.",cex.lab=size.x.lab,xlab="",cex.lab=size.y.lab
)
outl.text(boxdata,input=FALSE)
dev.off()
Regards Knut
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Re: [R] some EPS rotated in journal preview
Prof Brian Ripley schrieb:
> The problem is a well-known one in viewers looking at whole pages,
> especially PS -> PDF converters. R figures are particularly
> vulnerable as they have text running both horizontally and vertically
> (with normal axes).
>
> Please do follow exactly the advice on the postscript help page.
>
> The postscript produced for a single R plot is EPS (_Encapsulated
> PostScript_) compatible, and can be included into other documents,
> e.g., into LaTeX, using '\includegraphics{}'. For use
> in this way you will probably want to set 'horizontal = FALSE,
> onefile = FALSE, paper = "special"'.
>
>>
>> postscript("c:/temp/fig04.eps",bg="transparent",onefile = TRUE
>> ,pointsize=20,paper =
>> "letter",height=8,width=8,horizontal=FALSE,family = "Helvetica", font
>> = "Helvetica")
>
postscript("c:/temp/fig04.eps",bg="transparent",height=8,width=8,bg="transparent",pointsize=20,horizontal
= FALSE,onefile = FALSE, paper = "special",family = "Helvetica", font =
"Helvetica")
There is a error from boxplot without ,height=8,width=8
error in plot.new() : Grafikränder zu groß ( margins to big)
but I am afraid that they have autorotation on. I will aks the journal
to switch it off.
Regards Knut
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Re: [R] some EPS rotated in journal preview
Uwe Ligges schrieb: > > Always hard to tell what an "unknown" system is doing. We do not know > of any rotation problems with R graphics, hence please ask the poeple > running that "unknown system". I tried to ask, they converted the files to rotated tiff (as a free service) but used old files from the first submission, and they did not give me any answer why one file is not rotated the other 3 are rotated ... Sorry that I could not give you any more hints, but I will ask them to switch off auto rotation. Regards Knut __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] some EPS rotated in journal preview
I am trying to send a manuscript to a journal.
One of the figures build by R is in the right orientation and 4 are rotated
clockwise 90 deg in the preview.
I used the right click save to PS option and I used the command line
postscript("c:/temp/fig04.eps",bg="transparent",onefile = TRUE
,pointsize=20,paper = "letter",height=8,width=8,horizontal=FALSE,family =
"Helvetica", font = "Helvetica")
I treed Horizontal=TRUE Ghostsript show the rotated image but not the preview
from the journal. :-(
Is there anything to change that the - unknown system - of the journal will be
forced to display the image in the right direction?
Regards Knut
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Re: [R] new comer's question
Chang Shen schrieb:
>
>I have a csv file looks like this: (between two lines)
>===
>
>
>
>
>First I load it by read.table call:
>
>myArray <- read.table("c:/mydata.csv",sep=",");
>
>
>
did you try read.csv("c:/mydata.csv",sep=",")
Regards Knut
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Re: [R] rsq.rpart is there any R-Square value like in SPSS?
Chuck Cleland schrieb:
> I guess you want the Multiple R-Squared for a linear model. You can
> get that by using summary() on a linear model. For example:
>
> 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)
> summary(lm.D9)
> summary(lm.D9)$r.squared
> summary(lm.D9)$adj.r.squared
sure .. I was complete on the wrong way because I used the search
function :-(
used the summary more than one time
Regards Knut
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[R] rsq.rpart is there any R-Square value like in SPSS?
I found in the fullrefman only the function rsq.rpart with the search tearm r-square or rsquare. SPSS returnes the R Square an i am not albe to found the value in R Maybe there is another name for it Model Summary(d) ModelR R SquareAdjusted R SquareStd. Error of the Estimate 1 ,768(a) ,589 ,584171,032 Regards Knut __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] problem solved
>library(rpart) Regards Knut __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] rsq.rpart not found ...
Hi to all
I tried help.search("rsq") and found
Help files with alias or concept or title matching 'rsq.rpart' using
regular expression matching:
rsq.rpart(rpart)Plots the Approximate R-Square for the
Different Splits
then I tried to use the function but I got the error object not found
must I load any package before? there is nothing in the helpfile (R 2.2.0)
Regards Knut
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[R] wilcox.test warnig message p-value where are the zeros in the data?
does anybody know why there are the two warnings in the example above? Regards Knut > day_4 [1] 540 1 1 1 1 1 1 300 720 480 > day_1 [1] 438 3431 4751 562 500 435 1045 890 > is.vector (day_1) [1] TRUE > is.vector (day_4) [1] TRUE > wilcox.test(day_4 ,day_1,paired=TRUE,alternative="two.sided",exact=TRUE,conf.int=TRUE) Wilcoxon signed rank test with continuity correction data: day_4 and day_1 V = 1, p-value = 0.02086 alternative hypothesis: true mu is not equal to 0 95 percent confidence interval: -486.5 -120.0 sample estimates: (pseudo)median -348 Warning messages: 1: cannot compute exact p-value with zeroes in: wilcox.test.default(day_4, day_1, paired = TRUE, alternative = "two.sided", 2: cannot compute exact confidence interval with zeroes in: wilcox.test.default(day_4, day_1, paired = TRUE, alternative = "two.sided", __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] high resolution images for publication
Chris Buddenhagen schrieb: >Dear all > > > >I am using R to produce ordinations library(vegan) and the plot function >produced looks great on the screen but when I send it to jpg or pdf or eps >the resolution is not so good. Can you tell me how to get high resolution >images out of R for publication? > I tried to fix that problem weeks ago. The journal wants Tiff files in high resolution or EPS files - no PS files. The best solution was to use the postscript files from the R graphic device (right mouse save as postscript) After this I converted the files with Ghostscript and GSViev in a suitable file format. and after the submission was ready I tried to submit the postscript file ... It worked better than all the other. Maybe you should also try to use the PS-files.In our case we were ale to look to a PDF file after sending the file whether the submission is ok or not. And if it was ok the submission was sent to the journal. Therefore I tried all graphic formats before the regular submission. Regards Knut with regards Knut Krueger http://www.biostatistic.de __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] Wrong signature
I've got a comlaint about the signature in the last post. I answered form another computer and there is the automatic signature of our second business. On this place is also a part of the equine resarch program in progress. I did not realize that there was the siganture below. Sorry for that. Regards Knut __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] hist(x, ...) with normal distribution curve
Romain Francois schrieb: >Do you want that : > >h<-hist(x,breaks=10,freq = TRUE) >xfit<-seq(min(x),max(x),length=40) >yfit<-dnorm(xfit,mean=mean(x),sd=sd(x)) > >lines(xfit,yfit * 150 * (h$breaks[2]-h$breaks[1])) > > > > Right thats what I want ... but does it make sense to fit the line with a try and error multipier (150) Is there no way to compute the frequency and the distribution line with standardised function? I used SPSS with the data from x<-5+rnorm(150) Hit the graph-histogramm menue choosed: display normal curve and got the result: http://biostatistic.de/temp/spss1.jpg - just as easy as possible So, they have any standardised function. maybe it does not make sence, but i am not able to see why there is such a esay to use function in SPSS but not in R Maybe anybody is able to explane whiy and my intention: As a previous computer scientist I am trying to find a way to eleminate SPSS an use R Sure there is a big lack of my statistic knowledge - but the often the SPSS user have similar lack but it is easy to click and view instead to try the similar steps in R But if I am not able to find the steps in R for the common .. "SPSS-clicks" , I will never be able to suggest R in the institute to the people with mor statistical knowledge but no knowledge about computer science ... and command line interpreter Regards Knut -- Viele Grüße Knut Krüger -- Reitpark Einthal Leitung: 1 Tierarzt, 1 Berufsreiter Homepage http://www.einthal.de Eine fachgerechte Betreuung rund um die Uhr. __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] hist(x, ...) with normal distribution curve
Petr Pikal schrieb: >Hi > >answered hundered times. > > > >>Dear R people: >> >>I would like to superimpose a normal curve on a histogram. >> >> >x<-rnorm(150) >h<-hist(x,breaks=15) >xhist<-c(min(h$breaks),h$breaks) >yhist<-c(0,h$density,0) >xfit<-seq(min(x),max(x),length=40) >yfit<-dnorm(xfit,mean=mean(x),sd=sd(x)) >plot(xhist,yhist,type="s",ylim=c(0,max(yhist,yfit))) >lines(xfit,yfit) > > >Bill > >above is e.g. Bill Simpson's answer from 2001. Found from R-site >search ***histogram density normal***. > > Ok If I merge both of your answers I get the graph like in SPSS but the ylab is density instead frequency: and I do not have the clicks in SPSS to redo the same graph :-( I hav only the Data file and the SPSS plot. x<-5+rnorm(150) h<-hist(x,breaks=10,freq = TRUE) #I need this histogramm with... xfit<-seq(min(x),max(x),length=40) yfit<-dnorm(xfit,mean=mean(x),sd=sd(x)) lines(xfit,yfit) h<-hist(x,breaks=10,prob=T) xfit<-seq(min(x),max(x),length=40) yfit<-dnorm(xfit,mean=mean(x),sd=sd(x)) # ... this line lines(xfit,yfit) Thanks Knut [[alternative HTML version deleted]] __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] hist(x, ...) with normal distribution curve
. I am looking for a histogram or box plot with the adding normal distribution curve I think that must be possible, but I am not able to find out how to do. Regards Knut __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] png scaling problem - solved :-)
Gabor Grothendieck schrieb: >I can't reproduce this problem. It works fine for me. >Some possibilities are: > >1. check which version of fig2dev you are using. If you >are on Windows I am using the fig2dev that comes in >winfgi142.zip by Andreas Schmidt found at: > > http://user.cs.tu-berlin.de/~huluvu/WinFIG.htm > >Here is the version info I get: > >C:\bin>fig2dev -h | findstr Windows >Windows version 2 (02/08/2004) by Andreas Schmidt > I have Windows version 2.1 (11/08/2004) by Andreas Schmidt > >2. Also, it seems from your output that fig2dev uses ghostscript. >I am using ghostscript 8.13. Check what version you are >using. > > > 8.51 but the most easy solution was the link to winfig - Now I need three systems to convert the files ?!? ghostscript fig2dev and winfig but it works fine :-) I will write down this solution in our forum ( If the paper is submitted) and will post you the link. If anybody else will need the same you could post only the link ;-) thx Knut __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] png scaling problem
thx I will try it ... think I will be newbie in R for the next 10 jears ... And I don't know why wh choosed the only journal which don't want pdf files :-( __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] png scaling problem
Knut Krueger schrieb: >Ok there is a second description for the file format :-( >http://authors.elsevier.com/ArtworkInstructions.html?dc=AI2 >there are pdf formats welcome but with defined conditions: > > >Maybe anybody could give me a hint to get the files in the recommendet >format. >I will ask them immediately which whether the pdf is allowed or not, >becaus they have two different instruction sites :-( > > This one is genarally for elsvier journals, but if there is a special description in the journal page, authors must use this ... means: EPS: Vector drawings. Embed the font or save the text as "graphics". TIFF: Colour or greyscale photographs (halftones): always use a minimum of 300 dpi. TIFF: Bitmapped line drawings: use a minimum of 1000 dpi. TIFF: Combinations bitmapped line/half-tone (colour or greyscale): a minimum of 500 dpi is required. with regards Knut Krueger -- with regards Knut Krueger http://www.biostatistic.de __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] png scaling problem
but back to the last problem, what could be wrong that the ylab is not displayed as expected? with regards Knut __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] png scaling problem
Gabor Grothendieck schrieb:
>If you have not already tried it try creating a fig file:
>
>xfig("myfile.fig")
>plot(1:10)
>dev.off()
>
>and then using the fig2dev utility (find it via google) to convert it to a
>tiff:
>
>fig2dev -L tiff myfile.fig > myfile.tiff
>
>
>
Error:: fig2def: broken pipe
command was gs -q -dSAFER -sDEVICE=tiff24nc -r80 -g3830x506
-sOutputFile=44.tif
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Re: [R] png scaling problem
>Probably a better first question is, why are you using a bitmapped >graphics format if you need the image to be re-scaled? > I need a 1000 dpi tif file in a size of appr. 10 to 10 cm for applied animal behaviour science: http://authors.elsevier.com/GuideForAuthors.html?PubID=503301&dc=GFA images to one of the following formats (Note the resolution requirements for line drawings, halftones, and line/halftone combinations given below.): EPS: Vector drawings. Embed the font or save the text as "graphics". TIFF: Colour or greyscale photographs (halftones): always use a minimum of 300 dpi. TIFF: Bitmapped line drawings: use a minimum of 1000 dpi. TIFF: Combinations bitmapped line/half-tone (colour or greyscale): a minimum of 500 dpi is required. DOC, XLS or PPT: If your electronic artwork is created in any of these Microsoft Office applications please supply "as is". I tired the Postscript file but the file is double heigh as width i do not know why. The problem was already discussed in the tread: [R] High resolution plots I have to send the images possibly yesterday and I am looking fo a suitable solution since two months now. I tired gsview with converting to all possible Tiff formats but the images appear not in color and in a strange black and white way Some readers are able to read it (Windows Image view) other not and I do not know which reader the journal will use :-( And the ylab is too small ... http://biostatistic.de/temp/1.tif http://biostatistic.de/temp/2.tif http://biostatistic.de/temp/3.tif http://biostatistic.de/temp/4.tif >In general, >bitmapped graphics do not resize well, though if you have a specific >need and know a target image size, you can adjust various parameters to >look decent. Are you going to view these images in a web browser, where >you are concerned with display size and resolution? > >>From your e-mail headers it appears you are on Windows. If you need a >re-sizable graphic, use a vector based format such as wmf/emf, >especially if you need the graphics embedded in a Windows application >such as Word or Powerpoint. This is the default format under Windows >when copying and pasting a graphic between applications. You can then, >fairly freely, resize the image in the target application as you may >require. > >If you are going to print the graphic directly or include it in a >document for printing (as opposed to just viewing it), then use PDF or >Postscript. > Ok there is a second description for the file format :-( http://authors.elsevier.com/ArtworkInstructions.html?dc=AI2 there are pdf formats welcome but with defined conditions: Maybe anybody could give me a hint to get the files in the recommendet format. I will ask them immediately which whether the pdf is allowed or not, becaus they have two different instruction sites :-( Regards Knut __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] png scaling problem
scaling<-4 xywidth<-480 resolution<-150 png(filename = "c:/r/anschluss/plots/4.png", width = xywidth*scaling, height = xywidth*scaling,pointsize = 12, bg = "white", res = resolution*scaling) .. barplot(xrow,col = barcolors,cex.axis=scaling, ylab="mean time till attachment in sec",cex.lab=1.2*scaling) I tried to scale the barplot but there is one strange result: scaling=1 http://biostatistic.de/temp/1.png--- the ylab is ok scaling=2 http://biostatistic.de/temp/2.png--- the ylab is not ok scaling=4 http://biostatistic.de/temp/4.png--- the ylab is terrible is there any better solution to scale the resolution and the width/height? with regards Knut __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] standard deviation in barplots
> >There is an error in your function call. The argument 'ci.h' is >incorrect, as it should be 'ci.u'. Thus, use: > > > ... I think I will need glasses Tank's a lot Knut __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] standard deviation in barplots
I forgot the error message ... Error in barplot2.default(xrow, plot.ci = TRUE, ci.l = ci.l, ci.h = ci.h) : confidence interval values are missing __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] standard deviation in barplots
Sean Davis schrieb: >I think barplot2 in the gregmisc (gplots) bundle will do that. > >Sean > > > Ok thank´s but I've got an error and do not found the solution: ci.l [1] 304.09677 202.49907 0.0 63.14547 0.0 0.0 0.0 [8] 0.0 0.0 0.0 ci.h [1] 633.50323 426.10093 45.12493 344.85453 196.19980 198.17632 208.96365 [8] 76.49691 0.0 0.0 xrow [1] 468.8 314.3 20.1 204.0 96.0 96.0 115.0 36.0 0.0 0.0 barplot2(xrow,plot.ci=TRUE,ci.l=ci.l,ci.h=ci.h) Knut __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] standard deviation in barplots
Is there any function to plot the standard deviation with the barplots _ _ | Deviation |--- | -| | | | | Barplot | | | | | | with regards Knut Krueger __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] relation between cex.axis and pointsize in graphics device
I am not able to see the relation between this parameters. Will I get the same result with pointsize=24 and cex.axis=1 and pointsize=12 and cex.axis=2 It seems that the fonts will be only scaled when I am changing the pointsize after printing and it seem that they will be drawn in a better resoultion with the second way pointsize=12 and cex.axis=2 bmp(filename = "Rplot%03d.bmp", width = 480, height = 480, pointsize = 24, bg = "white", res = NA) axis(1, 1:7, LETTERS[1:7], cex.axis=1) bmp(filename = "Rplot%03d.bmp", width = 480, height = 480, pointsize = 12, bg = "white", res = NA) axis(1, 1:7, LETTERS[1:7], cex.axis=2) with regards Knut Krueger __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] RGUI crash when opening script in XP Home enviroment
>Prof Brian Ripley schrieb: > > > >>However, as I don't know what the `open file button' is, I cannot >>reproduce it. Is this MDI or SDI mode, >> >> found it : MDI Mode Pager Style multiple windows Knut Krueger __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] RGUI crash when opening script in XP Home enviroment
Prof Brian Ripley schrieb: >This is not the place to report reproducible faults: please see the >posting guide and send a complete bug report to the appropriate place. >(Let alone three followups from Duncan Mackay!) > > Thank´s for the hint I sent the error (including the following url) to the Bug tracing system, but I also thought that the user here should know how to prevent the error. I lost a lot of time with rewriting scripts which were not saved before I opened a new one until I realized the reason of this. >However, as I don't know what the `open file button' is, I cannot >reproduce it. Is this MDI or SDI mode, > Sorry about this, but I don not know the difference and I do not know what the shortcuts are standing for >and if the former is this using >the icon on the toolbar, whose tooltip says it is `open script'? > Yes this one but not the 'file -> open script' line > >Please make clear in your report if this one or two problems, i.e. is the >`not closing completely' only after the error? > > The report with screen prints is available (I'm sorry that it is a German operating system): http://www.biostatistic.de/forum/messages/2291/2350.html I hope this is clarifying the open questions with regards Knut Krueger http://www.biostatistic.de __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] RGUI crash when opening script in XP Home enviroment
Knut Krueger schrieb: >If there is a helpfile open (f.e ?glm) and it is the top window, then >an exception error occurs (closing RGUI) >when I hit the open file button. >If the helpfile is not the top window (of the RGUI) I am able to open a >new script without any error. >The RGUI is not closing complete there is a blank screen left which I >have to close with the X Button or Taskmanager > >Windows XP Home - German Version updates installed. > >R-Version 2.1.0 > >I > And it is the same problem with the 2.1.1 patched version http://www.cran.r-project.org/bin/windows/base/rpatched.html with regards Knut Krueger http://www.biostatistic.de __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] RGUI crash when opening script in XP Home enviroment
Knut Krueger schrieb: >If there you need any further details please ass for. > > ask for :-( AppName: rgui.exeAppVer: 2.10.50418.0ModName: r.dll ModVer: 2.10.50418.0 Offset: 77cc with regards Knut Krueger http://www.biostatistic.de __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] RGUI crash when opening script in XP Home enviroment
If there is a helpfile open (f.e ?glm) and it is the top window, then an exception error occurs (closing RGUI) when I hit the open file button. If the helpfile is not the top window (of the RGUI) I am able to open a new script without any error. The RGUI is not closing complete there is a blank screen left which I have to close with the X Button or Taskmanager Windows XP Home - German Version updates installed. R-Version 2.1.0 If there you need any further details please ass for. with regards Knut Krueger http://www.biostatistic.de __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] High resolution plots
Prof Brian Ripley schrieb:
>>>
>>>
>>the wmf command but there is nothing to find with help.search("wmf")
>>
>>
>
>Searching for acronyms is not usually a good idea. Searching for
>`metafile' should work (on Windows).
>
>Note that R can produce Windows metafiles only on Windows, which is why it
>is not in `An Introduction to R'.
>
>
>
I was looking for ?wmf because ?png, ?jpeg and ?bmp is working. Of
course because the function is named as the ending of the file format
Regards Knut
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Re: [R] High resolution plots
Knut Krueger schrieb: >Is there any possibility to get high resolution plots in a windows xp >system? >I tried it with the device function png(filename = >"c:/r/highresplot%d.png",pointsize=12, res=900) >but when I try to set: width = 480, height = 480 or pointsize = 12, >the text is not scaled in the same way as the plots. > There are three bmp based functions available;: bmp, jpeg, png bmp is without compression so I decided not to use it jpeg is no loss less compression so I decided not to use it the third was png Now I tried the other one and I think that there is a bug in the png code or I do not understand the reason: jpeg(filename = "c:/r/Rplot%03d.jpg", width = 960, height = 960, pointsize = 24, quality = 100, bg = "white", res = 2400) witdh/heigth = 960 <> 10.16 mm ppi=2400 Results as expected jpeg(filename = "c:/r/Rplot%03d.jpg", width = 1920, height = 1920, pointsize = 48, quality = 100, bg = "white", res = 2400) witdh/heigth = 1920 <> 20.32 mm ppi=2400 Results as expected bmp(filename = "c:/r/Rplot%03d.bmp", width = 1920, height = 1920, pointsize = 48, bg = "white", res = 2400) witdh/heigth = 1920 <> 20.32 mm ppi=2400 Results as expected png(filename = "c:/r/Rplot%03d.png", width = 1920, height = 1920, pointsize = 48, bg = "white", res = 2400) witdh/heigth = 1920 <> 20.32 mm ppi=150 Result not as expected. Ok I am able to use the jpeg or bmp format, but does anybody know why the png function does not work in the same way as the jpeg and bmp function? Regards Knut __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] High resolution plots
Gabor Grothendieck schrieb:
>On 7/13/05, Luis Tercero <[EMAIL PROTECTED]> wrote:
>
>
>>Dear R-help community,
>>
>>would any of you have a (preferably simple) example of a
>>presentation-quality .png plot, i.e. one that looks like the .eps plots
>>generated by R? I am working with R 2.0.1 in WindowsXP and am having
>>similar problems as Knut Krueger in printing high-quality plots. I have
>>looked at the help file and examples therein as well as others I have
>>been able to find online but to no avail. After many many tries I have
>>to concede I cannot figure it out.
>>
>>I would be very grateful for your help.
>>
>>
>
> If you want the highest resolution use a vector format,
>not a bitmapped format such as png. See:
>
>http://maths.newcastle.edu.au/~rking/R/help/04/02/1168.html
>
The link is now broken, and I did not copy the hints.
Does anybody knows if it its available at any other location?
And I tried to find
>Thanks for the pointer! .wmf is far superior, I was just in the dark
>about the format and R's ability to produce it (An Introduction to R
>"Device drivers" does not mention it and I had obviously missed the
>deciding last two words in "?device" 'windows')
>
the wmf command but there is nothing to find with help.search("wmf")
with regards
Knut Krueger
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Re: [R] High resolution plots
Peter Dalgaard schrieb: >Knut Krueger <[EMAIL PROTECTED]> writes: > > > >>Peter Dalgaard schrieb: >> >> >> >>>What is the real issue here? Import trouble? If you're importing to >>>Word/PowerPoint, why not use the Windows metafile? Perhaps they are >>>too ugly compared to EPS by your taste? >>> >>> >>> >>My reason was >>http://www.adobe.com/support/techdocs/328541.html >> >> > >Oh, lovely. > > isn't it ? :-( >Stupid question: You did remember to close the graphics device when >you generated those plots (dev.off())? > > the first idea was no I didn´t ... but I found my script and I did :-) >If an EPS file doesn't work with an Adobe product, there is some >reason to suspect that the file is corrupted or that there is an issue >with R's postscript driver. If you're seeing text corruption outside >the plot, then surely the E in EPS (for "encapsulated") is not working >as intended. > > That's a normal behaviour in windows surrounding. >Did you try the pdf() driver? That usually comes out rather nicely in >connection with Acrobat/Distiller. > > No I did not actually. the plots are good enough for printing with an laser printer, but they are not good enough for the journal. It is curious. one of them wants only pdf the other one wants tiff and wordperfect or word .. maybe the next one will receive old latin stone plates ;-) Therefore for one journal it is enough to use the eps or bmp resolution with pdf file or just an pdf output, but for the next one I will need a tiff with 300 dpi at least. with regards Knut Krueger http://www.biostatistic.de [[alternative HTML version deleted]] __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] High resolution plots
Peter Dalgaard schrieb: >What is the real issue here? Import trouble? If you're importing to >Word/PowerPoint, why not use the Windows metafile? Perhaps they are >too ugly compared to EPS by your taste? > > My reason was http://www.adobe.com/support/techdocs/328541.html I tried to plot emf files with pagemaker (not even a cheep or freeware pprogramm) and the lyaout was corrupted. I tried to use eps files the text was corrupted and I do not know how to transfer the *.ps file to tiff. Maybe there is any payware but if you have a layout application for more than 700 Euro you don´t like to by any further application only to change the *.ps format. So I am looking for any solution to increase the resolution. Maybe I do not understand the meanings of res, width and heigh or it is not working as expected (see answer from 12 Jul 2005) I still hope that Porf. Brian D. Ripley will answer to this question even though I got him on his nerves with a wrong answer. :-( with regards Knut Krueger http://www.biostatistic.de __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] texture in barplots?
Knut Krueger schrieb:
>Adrian Dusa schrieb:
>
>
>
>>Is it possible to draw barplots using a texture instead of colors, for a
>>black
>>and white printer?
>>
>>
>>
>>
>>
> barplot(height,.,density=c(4,6,8,10) ...)
>
>for each bar one number - this example is for a barplot with 4 bars.
>
>
>
forgot something
you could also set the angle and the color of the lines
barplot(height,.,col=c("blue","blue","blue","green"),density=c(4,6,8,10),angle=c(15,30,60,90),
...)
with regards
Knut Krueger
http://www.biostatistic.de
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Re: [R] texture in barplots?
Knut Krueger schrieb:
>Adrian Dusa schrieb:
>
>
>
>>Is it possible to draw barplots using a texture instead of colors, for a
>>black
>>and white printer?
>>
>>
>>
>>
>>
> barplot(height,.,density=c(4,6,8,10) ...)
>
>for each bar one number - this example is for a barplot with 4 bars.
>
>
>
forgot something
you could also set the angle and the color of the lines
barplot(height,.,col=c("blue","blue","blue","green"),density=c(4,6,8,10),angle=c(15,30,60,90),
...)
with regards
Knut Krueger
http://www.biostatistic.de
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Re: [R] texture in barplots?
Adrian Dusa schrieb: >Is it possible to draw barplots using a texture instead of colors, for a black >and white printer? > > > barplot(height,.,density=c(4,6,8,10) ...) for each bar one number - this example is for a barplot with 4 bars. with regards Knut Krueger http://www.biostatistic.de __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] High resolution plots
Sorry i sent the answer not to the mailing list - here it is Brian D Ripley schrieb: >On Tue, 12 Jul 2005, Knut Krueger wrote: > > > >>Prof Brian Ripley schrieb: >> >> >> >>>Please read carefully what `resolution' means for a png() device (and a >>>PNG file). It is a hint to the viewer in the file header (often ignored), >>>as described in the R help file. >>> >>> >>> > > >>>On Tue, 12 Jul 2005, Knut Krueger wrote: >>> >>> >>> >>> >>> >>>>Is there any possibility to get high resolution plots in a windows xp >>>>system? >>>>I tried it with the device function png(filename = >>>>"c:/r/highresplot%d.png",pointsize=12, res=900) >>>>but when I try to set: width = 480, height = 480 or pointsize = 12, >>>>the text is not scaled in the same way as the plots. >>>> >>>> Ok first: I do not want anybody to get angry and I am the first time in this group. I will make any mistakes like sending you your own help file and I apologize in advance for those mistakes. >Not if you just include those arguments or not. Yes if you include >res=900 or not, but that is not what you said. > > I tried to include res=600 and res=300 there was no difference in the file, both size was 4kb 480*480 Pixel and 150 dpi png(filename = "c:/r/highresplot%d.png",width = 480, height = 480,pointsize=12, res=300) png(filename = "c:/r/highresplot%d.png",width = 480, height = 480,pointsize=12, res=600) second attempt was to increase width = 480, height = 480 to width = 960, height = 960 png(filename = "c:/r/highresplot%d.png",width = 960, height = 960,pointsize=12, res=600) png(filename = "c:/r/highresplot%d.png",width = 480, height = 480,pointsize=12, res=300) both is the file size 8kb either with res=300 or res=600 double file size with double size of the device that's what i expected. The letters are nearly unreadable because they are very small - ok png(filename = "c:/r/highresplot%d.png",width = 480, height = 480,pointsize=24, res=300) Letters are in the same size as png(filename = "c:/r/highresplot%d.png",width = 480, height = 480,pointsize=12, res=300) also that's what I expected, but the quality of the characters is as bad as when I would extract the plot with any graphic application and the small lines from boxplots are sometimes visible sometimes not. >Why aer you sending me a help file I wrote, one which you seem to be >unable to understand? I am not the one failing to notice what it says. > But maybe you are right that I am not understanding the help file, but I hope that clarifies my problems and my mistakes with regards Knut Krueger http://www.biostatistic.de __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] High resolution plots
Is there any possibility to get high resolution plots in a windows xp system? I tried it with the device function png(filename = "c:/r/highresplot%d.png",pointsize=12, res=900) but when I try to set: width = 480, height = 480 or pointsize = 12, the text is not scaled in the same way as the plots. with regards Knut Krueger http://www.biostatistic.de __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
