RE: [R] Using files as connections
I nearly forgot to thank Andy Liaw and Tony Plate for their help with this
problem. BTW Andy's method does run faster than the natural fix-up of my
original code.
Murray Jorgensen
You are using the connection the wrong way. You need to do something
like:
fcon - file(c:/data/perry/data.csv, open=r)
for (iline in 1:slines) {
isel - isel + 1
cline - readLines(fcon, n=1)
...
}
close(fcon)
BTW, here's how I'd do it (not tested!):
strvec - rep(,slines)
selected - sort(sample(flines, slines))
skip - c(0, diff(selected) - 1)
fcon - file(c:/data/[erry/data.csv, open=r)
for (i in 1:length(skip)) {
## skip to the selected line
readLines(fcon, n=skip[i])
strvec[i] - readLines(fcon, n=1)
}
close(fcon)
HTH,
Andy
-Original Message-
From: [EMAIL PROTECTED] [mailto:[EMAIL PROTECTED]
Sent: Wednesday, August 27, 2003 7:19 PM
To: [EMAIL PROTECTED]
Subject: [R] Using files as connections
I have been trying to read a random sample of lines from a
file into a data frame using readLines(). The help indicates
that readLines() will start from the current line if the
connection is open, but presented with a closed connection it
will open it, start from the beginning, and close it when finished.
In the code that follows I tried to open the file before
reading but apparently without success, because the result
was repeated copies of the first line:
flines - 107165
slines - 100
selected - sort(sample(flines,slines))
strvec - rep(,slines)
file(c:/data/perry/data.csv,open=r)
isel - 0
for (iline in 1:slines) {
isel - isel + 1
cline - readLines(c:/data/perry/data.csv,n=1)
if (iline == selected[isel]) strvec[isel] - cline else
isel - isel - 1
}
close(c:/data/perry/data.csv)
sel.flows - read.table(textConnection(strvec), header=FALSE, sep=,)
There was also an error no applicable method for close.
Comments gratefully received.
Murray Jorgensen
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[R] Creating a new table from a set of constraints
Hi Everyone, Here's a silly newbie question. How do I remove unwanted rows from an R table? Say that I read my data as: X - read.table(mydata.txt) and say that there are columns for age and gender. Call these X[5] and X[10], respectively. Here, X[5] is a column of positive integers and X[10] is binary valued i.e., zero (for male) and one (for female) Now, say that I want to form a new table called Y which has the following constraints: 1. Only females that are between 18 and 40 years old. 2. Only males that are between 20 and 30 years old I can do this using a typical procedural approach (no different than C programmer would) but it seems to me that R has many shortcuts and so I thought I ask first before heading on an inefficient path. What's a good way of doing this, my data set is very large? Thanks, -Francisco __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help
RE: [R] Creating a new table from a set of constraints
Hi Francisco,
what I would do :
names(X)[c(5,10)]-c(Age,Gender)
Xnew1-X[X$Gender==1 X$Age=18 X$Age =40,]
Xnew2-X[X$Gender==0 X$Age=20 X$Age =30,]
Xnew-rbind(Xnew1,Xnew2)
But there must be something more elegant,
Good luck,
Arnaud
-Original Message-
From: Francisco J. Bido [mailto:[EMAIL PROTECTED]
Sent: Friday, 29 August 2003 4:10 PM
To: [EMAIL PROTECTED]
Subject: [R] Creating a new table from a set of constraints
Hi Everyone,
Here's a silly newbie question. How do I remove unwanted rows from an
R table? Say that I read my data as:
X - read.table(mydata.txt)
and say that there are columns for age and gender. Call these X[5] and
X[10], respectively.
Here, X[5] is a column of positive integers and X[10] is binary valued
i.e., zero (for male) and one (for female)
Now, say that I want to form a new table called Y which has the
following constraints:
1. Only females that are between 18 and 40 years old.
2. Only males that are between 20 and 30 years old
I can do this using a typical procedural approach (no different than C
programmer would) but it seems
to me that R has many shortcuts and so I thought I ask first before
heading on an inefficient path. What's
a good way of doing this, my data set is very large?
Thanks,
-Francisco
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Re: [R] mtext / expression and font type of bold
Al Piszcz wrote: mtext does not appear to be rendering a 'bold' expression. Is there another parameter to set? Thx. example (does not create bold (font=2) on plot) mtext( font=2, expression(paste(y, = , x + z), side=3 ) Mathematical expressions are handled differently from normal text. You might want to use mtext(expression(bold(y == x + z)), side = 3) See ?plotmath for details. Uwe Ligges __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help
Re: [R] Creating a new table from a set of constraints
Thanks everyone! I now see how to handle the situation. This has to be the most responsive mailing list ever... Best, -Francisco On Friday, August 29, 2003, at 01:39 AM, Andrew Hayen wrote: Also see this page: http://www.ats.ucla.edu/stat/SPLUS/faq/subset_R.htm A -Original Message- From: Francisco J. Bido [mailto:[EMAIL PROTECTED] Sent: Friday, 29 August 2003 4:10 PM To: [EMAIL PROTECTED] Subject: [R] Creating a new table from a set of constraints Hi Everyone, Here's a silly newbie question. How do I remove unwanted rows from an R table? Say that I read my data as: X - read.table(mydata.txt) and say that there are columns for age and gender. Call these X[5] and X[10], respectively. Here, X[5] is a column of positive integers and X[10] is binary valued i.e., zero (for male) and one (for female) Now, say that I want to form a new table called Y which has the following constraints: 1. Only females that are between 18 and 40 years old. 2. Only males that are between 20 and 30 years old I can do this using a typical procedural approach (no different than C programmer would) but it seems to me that R has many shortcuts and so I thought I ask first before heading on an inefficient path. What's a good way of doing this, my data set is very large? Thanks, -Francisco __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help
[R] extract numerical variables from a data frame
Hi I try to create from a data frame a new one which contains only the numerical variables (or factorial ones). Is there any function which does this task directly ? Or, is there any function which return the mode of each columns of a data frame. ? Thanks a lot for any help you can offer me, Vincent Spiesser __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help
Re: [R] extract numerical variables from a data frame
On Fri, 29 Aug 2003, Vincent Spiesser wrote: Hi I try to create from a data frame a new one which contains only the numerical variables (or factorial ones). Is there any function which does this task directly ? Or, is there any function which return the mode of each columns of a data frame. ? I think you want the class, as in sapply(adf, class) You could use mode if you really wanted it, but watch out for e.g. the mode of a factor being numeric. However, for your original question I would use numeric columns: DF[sapply(DF, is.numeric)] factor columns: DF[sapply(DF, is.factor)] and similar code is found throughout the R sources. -- 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 __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help
RE: [R] extract numerical variables from a data frame
for data.frame called dframe:
newframe - dframe[ , lapply(dframe, is.numeric)]
For the mode of the columns
lapply(dframe, mode)
See ?lapply !!
-Original Message-
From: Vincent Spiesser [mailto:[EMAIL PROTECTED]
Sent: 29 August 2003 10:08
To: [EMAIL PROTECTED]
Subject: [R] extract numerical variables from a data frame
Security Warning:
If you are not sure an attachment is safe to open please contact
Andy on x234. There are 0 attachments with this message.
Hi
I try to create from a data frame a new one which contains only the
numerical variables (or factorial ones).
Is there any function which does this task directly ?
Or, is there any function which return the mode of each columns of a
data
frame. ?
Thanks a lot for any help you can offer me,
Vincent Spiesser
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Tel: +44 (0) 1379 69
Fax: +44 (0) 1379 65
email: [EMAIL PROTECTED]
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[R] What fontfamily x11() device normally uses?
Hello! Can I somehow set x11 device to use font different from default helvetica-arial (times for example?)? Is this font hardcoded into R or can I substitute some other system font? Does x11 device use standard/user-supplied .Xresources file (under Linux)? The questions are the same for gtk() device (with .gtkrc substituted for .Xresources). Thanks in advance. __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help
[R] levelplot behaviour when at cuts the z range
Consider the following examples: library(lattice) x = c(1,1,2,2) y = c(1,2,1,2) z = 1:4 levelplot(z~x+y,at=c(.5, 1.5, 2.5, 3.5, 4.5)) # correct levelplot(z~x+y,at=c(.5, 1.5, 2.5)) # ? The second plot is clearly incorrect. However, I don't know what correct behaviour is: ignore everything above 2.5 and issue a warning? Reject at values that do not cover the data range, and issue an error message? I think I prefer the second, as it does not hide extremes. -- Edzer __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help
Re: [R] What fontfamily x11() device normally uses?
You have the sources (for each), so why not read them? The Unix X11 device has this helvetica hardcoded: what has arial to do with it? If you would like more flexibility, please supply a patch against the current R-devel sources. On Fri, 29 Aug 2003, M.Kondrin wrote: Can I somehow set x11 device to use font different from default helvetica-arial (times for example?)? Is this font hardcoded into R or can I substitute some other system font? Does x11 device use standard/user-supplied .Xresources file (under Linux)? The questions are the same for gtk() device (with .gtkrc substituted for .Xresources). -- 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 __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help
[R] R and pointer
Hi everyone, I want to write a function that modify directly variables passed as parameters (the equivalent in C language of *ptr/ptr) so that I don't have to return a list and to reaffect all my variables. Is it possible to do so in R? Thanks a lot. Laetitia Marisa. __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help
Re: [R] R and pointer
I want to write a function that modify directly variables passed as parameters (the equivalent in C language of *ptr/ptr) so that I don't have to return a list and to reaffect all my variables. Is it possible to do so in R? Thanks a lot. You can use environments as they're passed by reference. __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help
Re: [R] R and pointer
On Fri, 29 Aug 2003, Laetitia Marisa wrote: I want to write a function that modify directly variables passed as parameters (the equivalent in C language of *ptr/ptr) so that I don't have to return a list and to reaffect all my variables. Is it possible to do so in R? Yes, with the .Call/.External interface (and there are examples in the ts package). To a limited extent it is possible with .C(DUP=FALSE), but you really don't want to go there. I would want a very good understanding of R's copying semantics before doing this (and those are liable to change, too). -- 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 __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help
Re: [R] Creating a new table from a set of constraints
I would use the subset() function. Assuming the data frame has variable names Gender and Age, you could do: Y1 - subset(X, Gender == 1 Age = 18 Age = 40) Y2 - subset(X, Gender == 0 Age = 20 Age = 30) -roger Francisco J. Bido wrote: Hi Everyone, Here's a silly newbie question. How do I remove unwanted rows from an R table? Say that I read my data as: X - read.table(mydata.txt) and say that there are columns for age and gender. Call these X[5] and X[10], respectively. Here, X[5] is a column of positive integers and X[10] is binary valued i.e., zero (for male) and one (for female) Now, say that I want to form a new table called Y which has the following constraints: 1. Only females that are between 18 and 40 years old. 2. Only males that are between 20 and 30 years old I can do this using a typical procedural approach (no different than C programmer would) but it seems to me that R has many shortcuts and so I thought I ask first before heading on an inefficient path. What's a good way of doing this, my data set is very large? Thanks, -Francisco __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help
RE: [R] R and pointer
Three references that are of interest (the two first are related to the idea of using environments to do the job): [1] http://www.maths.lth.se/help/R/ImplementingReferences/ [2] http://www.maths.lth.se/help/R/R.oo/ [3] http://www.omegahat.org/OOP/ All of the above are written in the light object-oriented programming, but from [1] you quite easily get what is needed for just emulating pointers. Be careful though as R is a functional language. Best wishes Henrik Bengtsson Lund University -Original Message- From: [EMAIL PROTECTED] [mailto:[EMAIL PROTECTED] On Behalf Of Jeff Gentry Sent: den 29 augusti 2003 14:34 To: Laetitia Marisa Cc: [EMAIL PROTECTED] Subject: Re: [R] R and pointer I want to write a function that modify directly variables passed as parameters (the equivalent in C language of *ptr/ptr) so that I don't have to return a list and to reaffect all my variables. Is it possible to do so in R? Thanks a lot. You can use environments as they're passed by reference. __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo /r-help __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help
[R] vardiag package help
Hi, First of all a big THANK YOU to all who answered me yesterday. I am back to my problems with outliers. I did a qqnorm on my data (as somebody suggested), but I will like to compare results doing other plots as well. I used cook.distance on lm and glm objects, but still I am not happy with that. So now I am loading the vardiag package. First thing is to transform my data (frame.data) into a matrix which I did with as.matrix. I verify my new object as being amatrix and it is, and I list it to be sure that in is a matrix of n rows with 3 colums. Now I want to use the command varobj to transform my matrix into a variogram object. The param are: varobj(m, iter = 50, tolerance = 2e-04, trace = 1, loo = F) where, m is a n by 3 matrix with spatial data. My matrix has a column for x value, for y value and for pah16 concentrations. I always get the following error: Error in matrix(i1[row(i1) col(i1)], n1, n1) : cannot allocate vector of length 1223600400 What does this means and what I am doing wrong? Thank you in advance, Monica Monica Palaseanu-Lovejoy University of Manchester School of Geography Mansfield Cooper Building Oxford Road, Manchester M13 9PL, UK. email: [EMAIL PROTECTED] __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help
Re: [R] R and pointer
Henrik Bengtsson wrote: All of the above are written in the light object-oriented programming, but from [1] you quite easily get what is needed for just emulating pointers. Be careful though as R is a functional language. Cutting to what I think was the gist of the original poster's question, can I write a function, foo, that does this: x - 3 foo(x) x [1] 9 for any x, in any situation? I'm guessing its doable, but ugly... Baz __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help
RE: [R] R and pointer
foo - function(y) assign(deparse(substitute(y)), y^2, parent.frame())
assigns to the calling frame. Or you could put the required frame as
a second argument.
-Original Message-
From: Barry Rowlingson [mailto:[EMAIL PROTECTED]
Cutting to what I think was the gist of the original poster's
question,
can I write a function, foo, that does this:
x - 3
foo(x)
x
[1] 9
for any x, in any situation? I'm guessing its doable, but ugly...
Baz
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[R] Six axis y with axis function?
Hi, I am trying to plot a time serie of six colum of data sets on one plot but with using a different y-axis ranges for each - preferably with one shown on each side of the graph. I'm trying with axis function but not good luck i will for each they plot with our proper scale and range for example time ABC...etc 08:00:01 1000 15 2 08:00:02 2200 17 5 08:00:03 2500 19 7 ...plot.ts(..);axis(what parameter?) How i'cant plot six axis with your proper scale and range? thanks. Ruben Is there a function that will allow me to do this __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help
Re: [R] Six axis y with axis function?
The following works is tuned for S-Plus 6.1, but these tools can be used to produce what I hear in your question: par(mar=c(5,7,4,7)+.1)# create space for 2 axes on each side plot(0:1, 0:1, type=l, ylab=y1) axis(side=2, at=(1:2)/3, labels=(1:2)/3, line=4) mtext(text=y2, side=2, line=6.5) axis(side=4, at=(1:3)/4, labels=2^(1:3)) mtext(text=y3, side=4, line=1.5) axis(side=4, at=(1:4)/5, labels=letters[1:4], line=3.5) mtext(text=y4, side=4, line=5) hope this helps. spencer graves [EMAIL PROTECTED] wrote: Hi, I am trying to plot a time serie of six colum of data sets on one plot but with using a different y-axis ranges for each - preferably with one shown on each side of the graph. I'm trying with axis function but not good luck i will for each they plot with our proper scale and range for example time ABC...etc 08:00:01 1000 15 2 08:00:02 2200 17 5 08:00:03 2500 19 7 ...plot.ts(..);axis(what parameter?) How i'cant plot six axis with your proper scale and range? thanks. Ruben Is there a function that will allow me to do this __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help
Re: [R] levelplot behaviour when at cuts the z range
On Friday 29 August 2003 05:22, Edzer J. Pebesma wrote: Consider the following examples: library(lattice) x = c(1,1,2,2) y = c(1,2,1,2) z = 1:4 levelplot(z~x+y,at=c(.5, 1.5, 2.5, 3.5, 4.5)) # correct levelplot(z~x+y,at=c(.5, 1.5, 2.5)) # ? The second plot is clearly incorrect. However, I don't know what correct behaviour is: ignore everything above 2.5 and issue a warning? Reject at values that do not cover the data range, and issue an error message? I think I prefer the second, as it does not hide extremes. Definitely a bug, the color vector was just being recycled. I seem to have inadverdently fixed this a couple of days ago while making some related changes, and now the z-values that are out of bounds are simply not shown (as would happen if the corresponding z-values were NA). Does that sound acceptable ? I don't like your second option because users may knowingly want to do something like this (sort of what xlim and ylim are for). I'll send you the modifications off-list for you to try out. Deepayan __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help
[R] Lattice plot questions
Win2k, R1.7.1: I am currently working with some growth curve data from a biotoxicology experiment. Each of 12 subjects had their blood drawn at 0, 2, 4, 6, 8, and 10 weeks. For the purposes of the project, it would be helpful if I were able to do the following: a. Produce 12 panels, each displaying the *same* data, with the strip at the top of a particular panel showing exactly one of the subject id's b. For a particular panel, plot the time course data for the subject whose id appears in the strip in some really obvious color (like yellow, red, or blue), with circles at each time point, and connecting the dots. In the same panel, those subjects whose id's did NOT appear in the strip would ideally have their data plotted in black, possibly with no symbols at any of the time points, but still connecting the dots. I apologize if the description of what is needed is vague. It is possible to address (a) by duplicating the data set twelve times and cbind()ing a factor variable so that each of the duplicated data sets is associated with exactly one of the subject id's. I have done this, and the code subjects - foo$subject.id superpose.symbol - trellis.par.get(superpose.symbol) xyplot(log.response ~ week | factor.variable, data = foo, panel = panel.superpose, groups = subjects, key = list(space = top, columns = 6, transparent = TRUE, text = list(levels(subjects)), points = Rows(superpose.symbol,1:7)) ) works, with factor.variable corresponding to the cbind()ed factor variable. Unfortunately, I have been unable to figure out how to do (b). I would also like to determine a more memory efficient way of doing (a) -- even though my current data set is small (only 10 weeks of data per subject), that will change. Also, an examination of superpose.symbol reveals the following: superpose.symbol - trellis.par.get(superpose.symbol) superpose.symbol $cex [1] 0.8 0.8 0.8 0.8 0.8 0.8 0.8 $col [1] #00 #ff00ff #00ff00 #ff7f00 #007eff #00 #ff $font [1] 1 1 1 1 1 1 1 $pch [1] o o o o o o o This seems to indicate that lattice graphics are restricted to no more than seven colors, though I cannot believe that this is true. Where might I search/read/learn about the available colors for lattice plots and how to denote them? (I find #ff7f00 to be a little cryptic, for example.) Is there a table that relates these ?hexadecimal? numbers to descriptions like navy blue for Win2k? Finally, is it possible to cause superpose.symbol to default to more than 7 $cex/$col/$font/$pch values? Since I am working with 12 subjects, plots that assign a different color to each wind up duplicating colors and symbols at some point. Much thanks in advance, david paul __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help
[R] difference between - and =
Hi, I'm somewhat new to R and I'm trying to figure out the difference between the operators - and =. I've noticed that - cannot be used to bind arguments to values in function definitions and calls. That is, f(x - 2) sets x to 2 in the calling frame and then calls f(2) because the expression x - 2 returns a value of 2, whereas f(x = 2) sets x = 2 in the evaluation frame and not in the calling frame. From what I can tell, = is only different than - in the context of function definitions and calls. Is there any reason for using one operator over the other outside of function definitions and calls? Can someone point me to a precise specification of what each operator does? Any help would be appreciated! Levi __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help
Re: [R] difference between - and =
Levi Larkey schrieb: Hi, I'm somewhat new to R and I'm trying to figure out the difference between the operators - and =. - is an assignement operator = is primarily used for named arguments Some thoughts about the use of = as assignement operator can be found on: http://developer.r-project.org/equalAssign.html Thomas __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help
Re: [R] Lattice plot questions
Let's consider this simulated data:
foo - data.frame(resp = do.call(c, lapply(as.list(rep(6, 12)),
function(x) sort(rnorm(x,
week = rep(2*0:5, 12),
id = factor(rep(1:12, each = 6)))
Does the following give you what you want ?
xyplot(resp ~ week | id, foo,
panel = function(x, y, col = sup.sym$col, panel.number, ...) {
## this part accesses the data frame directly, and needs to
## be adjusted accordingly if the name of the variables
## therein change. This draws the part meant for the whole
## data set
panel.superpose(x = foo$week, y = foo$resp,
subscripts = TRUE, groups = foo$id,
type = 'l', col = black)
## this part draws the colored lines, each overwriting one
## of the background lines
sup.sym - trellis.par.get(superpose.symbol)
col.this - col[1 + ((panel.number - 1) %% length(col))]
panel.xyplot(x, y, type = 'b', col = col.this,
lwd = 2, cex = 1.2, ...)
})
This will by default use the colors in superpose.symbol, but you can override
that by specifying your own color as an argument to xyplot, perhaps something
like
xyplot(resp ~ week | id, foo, col = c(red, yellow, blue),
panel =
I personally don't see the point of using different colors though (that would
seem useful to me only if the different colors appeared within the same
panel).
There's no restriction on the length of the elements of
trellis.par.get(superpose.symbol). 7 (which is just as good a number as any
other) is the default choice, inspired by Trellis in S. Set it to whatever
you want with trellis.par.set() or lset() (or just supply the colors to
xyplot(), which is usually more convenient for specific tasks like this).
Names like navy blue are just a convenience, and I doubt that all 256^3
colors in the RGB space have been named, so trying to get a name for
#ff7f00 may not get you anywhere. R has a function col2rgb() that converts
colors to RGB, e.g.
col2rgb(#ff7f00)
[,1]
red255
green 127
blue 0
col2rgb(navyblue)
[,1]
red 0
green0
blue 128
If you are more comfortable with named colors, use them--- R accepts them
everywhere. A list of names it recognizes is produced by
colors()
The help pages for colors and col2rgb have more information.
HTH,
Deepayan
On Friday 29 August 2003 11:14, Paul, David A wrote:
Win2k, R1.7.1:
I am currently working with some growth curve data from a
biotoxicology experiment. Each of 12 subjects had their blood
drawn at 0, 2, 4, 6, 8, and 10 weeks. For the purposes of the
project, it would be helpful if I were able to do the following:
a. Produce 12 panels, each displaying the *same* data, with
the strip at the top of a particular panel showing
exactly one of the subject id's
b. For a particular panel, plot the time course data for
the subject whose id appears in the strip in some
really obvious color (like yellow, red, or blue),
with circles at each time point, and connecting the
dots. In the same panel, those subjects whose id's
did NOT appear in the strip would ideally have their
data plotted in black, possibly with no symbols at
any of the time points, but still connecting the
dots.
I apologize if the description of what is needed is vague.
It is possible to address (a) by duplicating the data set
twelve times and cbind()ing a factor variable so that each
of the duplicated data sets is associated with exactly one
of the subject id's. I have done this, and the code
subjects - foo$subject.id
superpose.symbol - trellis.par.get(superpose.symbol)
xyplot(log.response ~ week | factor.variable, data = foo,
panel = panel.superpose,
groups = subjects,
key = list(space = top, columns = 6, transparent = TRUE,
text = list(levels(subjects)),
points = Rows(superpose.symbol,1:7))
)
works, with factor.variable corresponding to the cbind()ed
factor variable. Unfortunately, I have been unable to figure
out how to do (b). I would also like to determine a more
memory efficient way of doing (a) -- even though my current
data set is small (only 10 weeks of data per subject), that will
change.
Also, an examination of superpose.symbol reveals the
following:
superpose.symbol - trellis.par.get(superpose.symbol)
superpose.symbol
$cex
[1] 0.8 0.8 0.8 0.8 0.8 0.8 0.8
$col
[1] #00 #ff00ff #00ff00 #ff7f00 #007eff #00 #ff
$font
[1] 1 1 1 1 1 1 1
$pch
[1] o o o o o o o
This seems to indicate that lattice graphics are restricted to
no more than seven colors, though I cannot believe that this is
RE: [R] Lattice plot questions
Thank you VERY much! That does address my questions.
Respectfully,
david paul
-Original Message-
From: Deepayan Sarkar [mailto:[EMAIL PROTECTED]
Sent: Friday, August 29, 2003 1:54 PM
To: Paul, David A; '[EMAIL PROTECTED]'
Subject: Re: [R] Lattice plot questions
Let's consider this simulated data:
foo - data.frame(resp = do.call(c, lapply(as.list(rep(6, 12)),
function(x) sort(rnorm(x,
week = rep(2*0:5, 12),
id = factor(rep(1:12, each = 6)))
Does the following give you what you want ?
xyplot(resp ~ week | id, foo,
panel = function(x, y, col = sup.sym$col, panel.number, ...) {
## this part accesses the data frame directly, and needs to
## be adjusted accordingly if the name of the variables
## therein change. This draws the part meant for the whole
## data set
panel.superpose(x = foo$week, y = foo$resp,
subscripts = TRUE, groups = foo$id,
type = 'l', col = black)
## this part draws the colored lines, each overwriting one
## of the background lines
sup.sym - trellis.par.get(superpose.symbol)
col.this - col[1 + ((panel.number - 1) %% length(col))]
panel.xyplot(x, y, type = 'b', col = col.this,
lwd = 2, cex = 1.2, ...)
})
This will by default use the colors in superpose.symbol, but you can
override
that by specifying your own color as an argument to xyplot, perhaps
something
like
xyplot(resp ~ week | id, foo, col = c(red, yellow, blue),
panel =
I personally don't see the point of using different colors though (that
would
seem useful to me only if the different colors appeared within the same
panel).
There's no restriction on the length of the elements of
trellis.par.get(superpose.symbol). 7 (which is just as good a number as
any
other) is the default choice, inspired by Trellis in S. Set it to whatever
you want with trellis.par.set() or lset() (or just supply the colors to
xyplot(), which is usually more convenient for specific tasks like this).
Names like navy blue are just a convenience, and I doubt that all 256^3
colors in the RGB space have been named, so trying to get a name for
#ff7f00 may not get you anywhere. R has a function col2rgb() that converts
colors to RGB, e.g.
col2rgb(#ff7f00)
[,1]
red255
green 127
blue 0
col2rgb(navyblue)
[,1]
red 0
green0
blue 128
If you are more comfortable with named colors, use them--- R accepts them
everywhere. A list of names it recognizes is produced by
colors()
The help pages for colors and col2rgb have more information.
HTH,
Deepayan
On Friday 29 August 2003 11:14, Paul, David A wrote:
Win2k, R1.7.1:
I am currently working with some growth curve data from a
biotoxicology experiment. Each of 12 subjects had their blood drawn
at 0, 2, 4, 6, 8, and 10 weeks. For the purposes of the project, it
would be helpful if I were able to do the following:
a. Produce 12 panels, each displaying the *same* data, with
the strip at the top of a particular panel showing
exactly one of the subject id's
b. For a particular panel, plot the time course data for
the subject whose id appears in the strip in some
really obvious color (like yellow, red, or blue),
with circles at each time point, and connecting the
dots. In the same panel, those subjects whose id's
did NOT appear in the strip would ideally have their
data plotted in black, possibly with no symbols at
any of the time points, but still connecting the
dots.
I apologize if the description of what is needed is vague.
It is possible to address (a) by duplicating the data set twelve times
and cbind()ing a factor variable so that each of the duplicated data
sets is associated with exactly one of the subject id's. I have done
this, and the code
subjects - foo$subject.id
superpose.symbol - trellis.par.get(superpose.symbol)
xyplot(log.response ~ week | factor.variable, data = foo,
panel = panel.superpose,
groups = subjects,
key = list(space = top, columns = 6, transparent = TRUE,
text = list(levels(subjects)),
points = Rows(superpose.symbol,1:7))
)
works, with factor.variable corresponding to the cbind()ed factor
variable. Unfortunately, I have been unable to figure out how to do
(b). I would also like to determine a more memory efficient way of
doing (a) -- even though my current data set is small (only 10 weeks
of data per subject), that will change.
Also, an examination of superpose.symbol reveals the
following:
superpose.symbol - trellis.par.get(superpose.symbol)
superpose.symbol
$cex
[R] lattice question
Hello, I am using lattice to plot histograms of one variable conditioned on another continuous variable. for this I am using equal.count on the conditioning variable to get the appropriate shingle. I would like to have in my plot a representation of the shingle's intervals including the min/max values and maybe tick marks. some sort of axis for the conditioning variable. while the 'strips' of the lattice plot do represent the single intervals as a darkly shaded region. I can't find a way to also include in the plot the actual min/max numbers corresponding to the shingle's intervals. is that possible? regards -- Murad Nayal M.D. Ph.D. Department of Biochemistry and Molecular Biophysics College of Physicians and Surgeons of Columbia University 630 West 168th Street. New York, NY 10032 Tel: 212-305-6884 Fax: 212-305-6926 __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help
Re: [R] lattice question
The typical graphical representation for shingles is via plot.shingle, e.g.
a - equal.count(rnorm(100))
plot(a)
I'm not sure how you wish to represent this information inside the histogram
plot itself, but everything you need should be available inside the strip
function. For example,
#
x - rnorm(100)
a - equal.count(rnorm(100))
histogram( ~ x | a, par.strip.text = list(lines = 2),
strip = function(..., shingle.intervals,
which.given, which.panel, strip.names) {
print(shingle.intervals[which.panel[which.given], ,drop = TRUE])
strip.default(...,
shingle.intervals = shingle.intervals,
which.given = which.given,
which.panel = which.panel,
strip.names = FALSE)
ltext(.5, .5,
paste(round(shingle.intervals[which.panel[which.given], ,
drop = TRUE],
digits = 4), collapse = , ))
})
The width of the strip area is determined by the display, but you can control
the height with par.strip.text. (Currently, whatever the strip function does
is clipped to within the strip area, you can override that with a setting
option in the lattice version that comes with r-devel)
Deepayan
On Friday 29 August 2003 14:37, Murad Nayal wrote:
Hello,
I am using lattice to plot histograms of one variable conditioned on
another continuous variable. for this I am using equal.count on the
conditioning variable to get the appropriate shingle. I would like to
have in my plot a representation of the shingle's intervals including
the min/max values and maybe tick marks. some sort of axis for the
conditioning variable. while the 'strips' of the lattice plot do
represent the single intervals as a darkly shaded region. I can't find a
way to also include in the plot the actual min/max numbers corresponding
to the shingle's intervals. is that possible?
regards
__
[EMAIL PROTECTED] mailing list
https://www.stat.math.ethz.ch/mailman/listinfo/r-help
[R] case weight in mixed model
Hi, I have a question about how to do case weight in mixed model using R. Can R do this? If so, could you give me some references and examples? I'm looking forward to hearing from you. Thanks a lot! Tianyue __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help
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