RE: [R] Sorting problem
On 24-Dec-04 Gabor Grothendieck wrote:
>> From: Gabor Grothendieck <[EMAIL PROTECTED]>
>> > > From: <[EMAIL PROTECTED]>
>> > > On 24-Dec-04 Gabor Grothendieck wrote:
>> > > > Actually they are shown in order of the levels of the factor.
>> > > > e.g. to show them in reverse order:
>> > > >
>> > > > attach(InsectSprays)
>> > > > spray<-factor(as.character(spray),level=rev(levels(spray)))
>> > > > boxplot(count ~ spray)
>> > >
>> > > Applying boxplot to data constructed as follows:
>> > >
>> > > X<-list(C=rnorm(10),B=rnorm(20),A=rnorm(30))
>> > > boxplot(X)
>> > >
>> > > gives the plots in the order "C", "B", "A", so here they indeed
>> > > come out in the order of the data.
>> > >
>> > > But suppose I had wanted them in the order "B", "A", "C", say.
>> > > How would Gabor's suggestion (or similar) be applied to this case?
>> >
>> > boxplot(X[c("B","C","A")])
>> >
>>
>> It occurred to me that maybe your question was not how to reorder
>> them if they are in list form but how to convert the list form
>> to the formula form. If that was it then:
Yes, I was interested in how to relate the two forms.
>> Xu <- unlist(X)
>> g <- factor(rep(names(X), sapply(X, length)))
>> # add levels= arg to reorder
>> boxplot(Xu ~ g)
And thanks for this manoeuvre! But ...
> or even shorter:
>
> boxplot(values ~ ind, stack(X))
... Wow!! I always admire neat footwork, but, Gabor, how many
feet have you got? This is like watching the 3-card trick!
Happy Christmas!
Ted.
E-Mail: (Ted Harding) <[EMAIL PROTECTED]>
Fax-to-email: +44 (0)870 094 0861 [NB: New number!]
Date: 24-Dec-04 Time: 18:16:05
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RE: [R] Sorting problem
From: Gabor Grothendieck <[EMAIL PROTECTED]>
>
> [sorry. I had some email problems on my last one. here it
> is again.]
>
> From: Gabor Grothendieck <[EMAIL PROTECTED]>
> >
> > > From: <[EMAIL PROTECTED]>
> > >
> > > On 24-Dec-04 Gabor Grothendieck wrote:
> > > >
> > > > From: Paul JH Drake <[EMAIL PROTECTED]>
> > > >>
> > > >> When I plot data as a boxplot, the boxes appear on the plot in
> > > >> alphabetical order (of group) rather than the order in which they
> > > >> appear
> > > >> in the data. So far, the only thing I can do to fix this is to prefix
> > > >> the group labels with a,b,c...etc to trick R into plotting them in the
> > > >> right order.
> > > >>
> > > >> Can sorting be turned off?
> > > >> How should I address this sensibly?
> > > >
> > > > Actually they are shown in order of the levels of the factor.
> > > > e.g. to show them in reverse order:
> > > >
> > > > attach(InsectSprays)
> > > > spray <- factor( as.character(spray), level = rev(levels(spray)) )
> > > > boxplot(count ~ spray)
> > >
> > > Applying boxplot to data constructed as follows:
> > >
> > > X<-list(C=rnorm(10),B=rnorm(20),A=rnorm(30))
> > > boxplot(X)
> > >
> > > gives the plots in the order "C", "B", "A", so here they indeed
> > > come out in the order of the data.
> > >
> > > But suppose I had wanted them in the order "B", "A", "C", say.
> > > How would Gabor's suggestion (or similar) be applied to this case?
> >
> > boxplot(X[c("B","C","A")])
> >
>
> It occurred to me that maybe your question was not how to reorder
> them if they are in list form but how to convert the list form
> to the formula form. If that was it then:
>
> Xu <- unlist(X)
> g <- factor(rep(names(X), sapply(X, length))) # add levels= arg to reorder
> boxplot(Xu ~ g)
or even shorter:
boxplot(values ~ ind, stack(X))
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RE: [R] Sorting problem
[sorry. I had some email problems on my last one. here it
is again.]
From: Gabor Grothendieck <[EMAIL PROTECTED]>
>
> > From: <[EMAIL PROTECTED]>
> >
> > On 24-Dec-04 Gabor Grothendieck wrote:
> > >
> > > From: Paul JH Drake <[EMAIL PROTECTED]>
> > >>
> > >> When I plot data as a boxplot, the boxes appear on the plot in
> > >> alphabetical order (of group) rather than the order in which they
> > >> appear
> > >> in the data. So far, the only thing I can do to fix this is to prefix
> > >> the group labels with a,b,c...etc to trick R into plotting them in the
> > >> right order.
> > >>
> > >> Can sorting be turned off?
> > >> How should I address this sensibly?
> > >
> > > Actually they are shown in order of the levels of the factor.
> > > e.g. to show them in reverse order:
> > >
> > > attach(InsectSprays)
> > > spray <- factor( as.character(spray), level = rev(levels(spray)) )
> > > boxplot(count ~ spray)
> >
> > Applying boxplot to data constructed as follows:
> >
> > X<-list(C=rnorm(10),B=rnorm(20),A=rnorm(30))
> > boxplot(X)
> >
> > gives the plots in the order "C", "B", "A", so here they indeed
> > come out in the order of the data.
> >
> > But suppose I had wanted them in the order "B", "A", "C", say.
> > How would Gabor's suggestion (or similar) be applied to this case?
>
> boxplot(X[c("B","C","A")])
>
It occurred to me that maybe your question was not how to reorder
them if they are in list form but how to convert the list form
to the formula form. If that was it then:
Xu <- unlist(X)
g <- factor(rep(names(X), sapply(X, length))) # add levels= arg to reorder
boxplot(Xu ~ g)
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RE: [R] Sorting problem
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> From: Gabor Grothendieck <[EMAIL PROTECTED]>
>
> > From: <[EMAIL PROTECTED]>
> >
> > On 24-Dec-04 Gabor Grothendieck wrote:
> > >
> > > From: Paul JH Drake <[EMAIL PROTECTED]>
> > >>
> > >> When I plot data as a boxplot, the boxes appear on the plot in
> > >> alphabetical order (of group) rather than the order in which they
> > >> appear
> > >> in the data. So far, the only thing I can do to fix this is to prefix
> > >> the group labels with a,b,c...etc to trick R into plotting them in the
> > >> right order.
> > >>
> > >> Can sorting be turned off?
> > >> How should I address this sensibly?
> > >
> > > Actually they are shown in order of the levels of the factor.
> > > e.g. to show them in reverse order:
> > >
> > > attach(InsectSprays)
> > > spray <- factor( as.character(spray), level = rev(levels(spray)) )
> > > boxplot(count ~ spray)
> >
> > Applying boxplot to data constructed as follows:
> >
> > X<-list(C=rnorm(10),B=rnorm(20),A=rnorm(30))
> > boxplot(X)
> >
> > gives the plots in the order "C", "B", "A", so here they indeed
> > come out in the order of the data.
> >
> > But suppose I had wanted them in the order "B", "A", "C", say.
> > How would Gabor's suggestion (or similar) be applied to this case?
>
> boxplot(X[c("B","C","A")])
>
It occurred to me that maybe your question was not how to reorder
them if they are in list form but how to convert the list form
to the formula form. If that was it then:
Xu <- unlist(X)
g <- factor(rep(names(X), sapply(X, length)))
boxplot(Xu ~ g)
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Re: [R] how to ignore t.test error message
burak kutlu wrote: Hello, I was wondering if there is a way to ignore the error message you get when some of the data means you compare are constant in some lines of your data frame. What does the error message say exactly? Do you have an example? Even with the degenerated case t.test(c(0, 0), c(0, 0)) I don't get any error message. I'd like to go ahead with t.test See ?try and get the calculated p-values anyway in such a case. And what is the p-value in such a case? I guess I haven't understood the problem correctly, so please be more specific! Uwe Ligges Thanks -burak __ 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-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] searching Jonathan Baron's R Site - revised function
Documentation coming soon.
--
# Written by Andy Liaw and modified by Jonathan Baron 12/24/2004.
RSiteSearch <- function(string,
restrict=c("Rhelp02a","Rhelp01","functions","docs"),
format="normal", sortby="score", matchesPerPage=20) {
string <- paste("http://finzi.psych.upenn.edu/cgi-bin/namazu.cgi?query=";,
gsub(" ", "+", string), sep="")
mpp <- paste("max=", matchesPerPage, sep="")
format <- charmatch(format, c("normal", "short"))
if (format == 0) stop("format must be either normal or short")
format <- paste("result=", switch(format, "normal", "short"), sep="")
sortby <- charmatch(sortby, c("score", "date:late", "date:early",
"field:subject:ascending",
"field:subject:decending",
"field:from:ascending",
"field:from:decending",
"field:size:ascending",
"field:size:decending",
"field:uri:ascending",
"field:uri:decending",))
if (sortby == 0) stop("wrong sortby specified")
sortby <- paste("sort=",
switch(sortby, "score", "date:late", "date:early",
"field:subject:ascending",
"field:subject:decending",
"field:from:ascending",
"field:from:decending",
"field:size:ascending",
"field:size:decending",
"field:uri:ascending", "field:uri:decending"),
sep="")
res <- ""
if ("Rhelp02a" %in% restrict) res <- "idxname=Rhelp02a"
if ("Rhelp01" %in% restrict) res <- paste(res,"idxname=Rhelp01",sep="&")
if ("docs" %in% restrict) res <- paste(res,"idxname=docs",sep="&")
if ("functions" %in% restrict) res <- paste(res,"idxname=functions",sep="&")
if (res=="") {print("Using defaults: Rhelp 2002-; functions; docs.")
res <- paste("idxname=Rhelp02a&idxname=functions&idxname=docs",sep="")}
res <- sub("^&+","",res)
qstring <- paste(string, mpp, format, sortby, res, sep="&")
browseURL(qstring)
invisible(qstring)
}
--
Jonathan Baron, Professor of Psychology, University of Pennsylvania
Home page: http://www.sas.upenn.edu/~baron
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Re: [R] Sorting problem
Hi Sorry if my post wasn't clear. R version: 2.0.0 OS: SuSE 9.1 Pentium IV laptop I have been creating boxplots as follows: boxplot(gene~Group) [additional options left out for simplicity] and the problem was that the boxplots were plotted in alphabetical order, rather than the order in which I wanted them to be plotted. Thanks for your suggestions - now that I know a little more about factors, I have been able to arrange the order of the levels of the factor "Group" and all is well! Thanks for your patience and help Paul __ 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] Sorting problem
> From: <[EMAIL PROTECTED]>
>
> On 24-Dec-04 Gabor Grothendieck wrote:
> >
> > From: Paul JH Drake <[EMAIL PROTECTED]>
> >>
> >> When I plot data as a boxplot, the boxes appear on the plot in
> >> alphabetical order (of group) rather than the order in which they
> >> appear
> >> in the data. So far, the only thing I can do to fix this is to prefix
> >> the group labels with a,b,c...etc to trick R into plotting them in the
> >> right order.
> >>
> >> Can sorting be turned off?
> >> How should I address this sensibly?
> >
> > Actually they are shown in order of the levels of the factor.
> > e.g. to show them in reverse order:
> >
> > attach(InsectSprays)
> > spray <- factor( as.character(spray), level = rev(levels(spray)) )
> > boxplot(count ~ spray)
>
> Applying boxplot to data constructed as follows:
>
> X<-list(C=rnorm(10),B=rnorm(20),A=rnorm(30))
> boxplot(X)
>
> gives the plots in the order "C", "B", "A", so here they indeed
> come out in the order of the data.
>
> But suppose I had wanted them in the order "B", "A", "C", say.
> How would Gabor's suggestion (or similar) be applied to this case?
boxplot(X[c("B","C","A")])
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RE: [R] Sorting problem
On Fri, 24 Dec 2004 [EMAIL PROTECTED] wrote:
On 24-Dec-04 Gabor Grothendieck wrote:
From: Paul JH Drake <[EMAIL PROTECTED]>
When I plot data as a boxplot, the boxes appear on the plot in
alphabetical order (of group) rather than the order in which they
appear
in the data. So far, the only thing I can do to fix this is to prefix
the group labels with a,b,c...etc to trick R into plotting them in the
right order.
Can sorting be turned off?
How should I address this sensibly?
Actually they are shown in order of the levels of the factor.
That's making lots of unsubstantiated assumptions, including that the
formula interface to boxplot() was used: we do not even know that
boxplot() was used (rather than plot.factor or bwplot or ...).
e.g. to show them in reverse order:
attach(InsectSprays)
spray <- factor( as.character(spray), level = rev(levels(spray)) )
boxplot(count ~ spray)
Applying boxplot to data constructed as follows:
X<-list(C=rnorm(10),B=rnorm(20),A=rnorm(30))
boxplot(X)
gives the plots in the order "C", "B", "A", so here they indeed
come out in the order of the data.
But suppose I had wanted them in the order "B", "A", "C", say.
How would Gabor's suggestion (or similar) be applied to this case?
(OK I'm being thick, maybe; but I can't see how to relate the
one to the other!)
They are not related. You need to reorder the elements in your list:
boxplot(X[c("B", "A", "C")])
The help page for boxplot in R-devel explains both approaches.
--
Brian D. Ripley, [EMAIL PROTECTED]
Professor of Applied Statistics, http://www.stats.ox.ac.uk/~ripley/
University of Oxford, Tel: +44 1865 272861 (self)
1 South Parks Road, +44 1865 272866 (PA)
Oxford OX1 3TG, UKFax: +44 1865 272595
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RE: [R] Sorting problem
On 24-Dec-04 Gabor Grothendieck wrote: > > From: Paul JH Drake <[EMAIL PROTECTED]> >> >> When I plot data as a boxplot, the boxes appear on the plot in >> alphabetical order (of group) rather than the order in which they >> appear >> in the data. So far, the only thing I can do to fix this is to prefix >> the group labels with a,b,c...etc to trick R into plotting them in the >> right order. >> >> Can sorting be turned off? >> How should I address this sensibly? > > Actually they are shown in order of the levels of the factor. > e.g. to show them in reverse order: > > attach(InsectSprays) > spray <- factor( as.character(spray), level = rev(levels(spray)) ) > boxplot(count ~ spray) Applying boxplot to data constructed as follows: X<-list(C=rnorm(10),B=rnorm(20),A=rnorm(30)) boxplot(X) gives the plots in the order "C", "B", "A", so here they indeed come out in the order of the data. But suppose I had wanted them in the order "B", "A", "C", say. How would Gabor's suggestion (or similar) be applied to this case? (OK I'm being thick, maybe; but I can't see how to relate the one to the other!) Ted. __ 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] Sorting problem
On Fri, 24 Dec 2004, Paul JH Drake wrote: I'm using R 2.0 in SuSE 9.2. There is no such version, BTW: please see the posting guide for hints on supplying the sort of information we need (and an example would have helped a lot here). When I plot data as a boxplot, the boxes appear on the plot in alphabetical order (of group) rather than the order in which they appear in the data. I'm guessing you used the formula interface to boxplot(): if so they appear in the order of the levels of the factor. Otherwise they appear in the order the groups are supplied to boxplot(). So far, the only thing I can do to fix this is to prefix the group labels with a,b,c...etc to trick R into plotting them in the right order. Can sorting be turned off? No, as it is not turned on! How should I address this sensibly? I need to be guessing, again! Create your group as a factor with the levels in the order you want. You don't tell us how you created it, but see ?factor. In particular, if you did not supply a factor but something which was coerced to a factor, supply a factor. -- Brian D. Ripley, [EMAIL PROTECTED] Professor of Applied Statistics, http://www.stats.ox.ac.uk/~ripley/ University of Oxford, Tel: +44 1865 272861 (self) 1 South Parks Road, +44 1865 272866 (PA) Oxford OX1 3TG, UKFax: +44 1865 272595 __ 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] Sorting problem
From: Paul JH Drake <[EMAIL PROTECTED]> > > When I plot data as a boxplot, the boxes appear on the plot in > alphabetical order (of group) rather than the order in which they appear > in the data. So far, the only thing I can do to fix this is to prefix > the group labels with a,b,c...etc to trick R into plotting them in the > right order. > > Can sorting be turned off? > How should I address this sensibly? Actually they are shown in order of the levels of the factor. e.g. to show them in reverse order: attach(InsectSprays) spray <- factor( as.character(spray), level = rev(levels(spray)) ) boxplot(count ~ spray) __ 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] Sorting problem
Hi I'm using R 2.0 in SuSE 9.2. When I plot data as a boxplot, the boxes appear on the plot in alphabetical order (of group) rather than the order in which they appear in the data. So far, the only thing I can do to fix this is to prefix the group labels with a,b,c...etc to trick R into plotting them in the right order. Can sorting be turned off? How should I address this sensibly? Thanks in advance Paul __ 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
