Re: [R] Lattice : Help with changing the labels of x-axis in respective panels

2009-12-04 Thread Deepayan Sarkar
On Fri, Dec 4, 2009 at 11:53 AM, Sunny Srivastava wrote: > Dear R-Helpers, > I am not very experienced in using lattice and I am still in the learning > stage > > I have a data set which looks like this: (I have deleted a few lines in > order to save space) > >   Chromosome marker Marker.Name Dist

Re: [R] how to use different ylim scales on a lattice bwplot?

2009-12-03 Thread Deepayan Sarkar
On Thu, Dec 3, 2009 at 2:32 PM, Felix Andrews wrote: > You can define a custom prepanel function: see the entry for > 'prepanel' in ?xyplot > > If you just want to set specified ylims in each panel, you can do that > by passing a list to 'ylim'. All this assuming, of course, that scales="free" is

Re: [R] Help: barchart() {Lattice}

2009-12-03 Thread Deepayan Sarkar
On Thu, Dec 3, 2009 at 10:02 AM, Felix Andrews wrote: > Either > (1) use the 'alternating' option rather than 'relation' (see > documentation for 'scales' argument); > or > (2) put 'rot' inside the 'y' list if you want it to apply only to the y axis. Or you can have scales = list(y = list(at = y

Re: [R] plotting two surfaces simultaneously in a single panel

2009-12-02 Thread Deepayan Sarkar
On Fri, Nov 27, 2009 at 6:14 PM, Umesh Srinivasan wrote: > Hi, > > I have recently begun using the lattice package, and have been using > the wireframe command to visualise matrices which are model outputs. I > have been trying to plot two surfaces (from two matrices) > simultaneously in one panel

Re: [R] barchart() {Lattice} help.

2009-11-27 Thread Deepayan Sarkar
On Fri, Nov 27, 2009 at 9:21 AM, Peng Cai wrote: > @ Peter: I got it, thanks a lot for all your help! And yes, as you said the > "title" option in auto.key is redundant. > > > @ All, Hi: I need to add percentage sign to y-axis labels (like 0%, 20%, > ..., 100%). How can I get it. I'm using barchar

Re: [R] Adding text in the panels for Trellis plot ...

2009-11-27 Thread Deepayan Sarkar
On Thu, Nov 26, 2009 at 6:22 AM, ychu066 wrote: > > i was trying to do a for loop for plotting the histograms , but it doesnt > work properly > >> library(lattice) >> columns <- 8:153 >> plots <- vector("list", length(columns)) >> j <- 0 >> for (i in columns) > + { > +   plots[[ j <- j+1 ]] <- his

Re: [R] order of panels in xyplots

2009-11-27 Thread Deepayan Sarkar
On Thu, Nov 26, 2009 at 12:09 AM, Titus Malsburg wrote: > The documentation of xyplot could be improved here.  It says: > >  "If 'index.cond' is a list, it has to be as long as the number of > conditioning >   variables, and the 'i'-th component has to be a valid indexing vector for > the >   in

Re: [R] lattice --- different properties of lines corresponding to type=c("l", "a") respectively

2009-11-27 Thread Deepayan Sarkar
On Fri, Nov 27, 2009 at 1:13 AM, Kjetil Halvorsen wrote: > I think the subject says it all. I want to make a simple lattice plot, > using xyplot with the > argument     type=c("l","a"). > The problem then is that in the resulting plot it is > difficult/impossible to see which plot corresponds to t

Re: [R] Cannot set wireframe ticks?

2009-11-24 Thread Deepayan Sarkar
On Tue, Nov 24, 2009 at 10:02 AM, Fredrik Johansson wrote: > I have an issue when making a wireframe plot. I can't find any way to > change the number of ticks on the labels. I try to set it in the code > below with z.ticks=1, but that doesn't work. Is there anything that > works? (Note. I need to

Re: [R] Hmisc and Lattice question on gridlines

2009-11-20 Thread Deepayan Sarkar
On Fri, Nov 20, 2009 at 7:47 AM, Joe King wrote: > I have been using lattice xyplot and am quite pleased, and I can use the > type=c("b","g") to have it print gridlines into the page, yet if I want to > have a line plot with points on it, how do I get the xYplot to print > gridlines (I use Hmisc x

Re: [R] how to specify the order of panels with xyplot

2009-11-20 Thread Deepayan Sarkar
On Fri, Nov 20, 2009 at 12:53 PM, Dan Kortschak wrote: > I have sorted out how to do this - by much trial an error (a comment > from Deepayan in a post some years ago pointed which way to go, though > it took a lot of searching to find even where to start with it: > > I've bound the two sets of da

Re: [R] [Follow-up] Re: PLoS, Arial, R & linux

2009-11-19 Thread Deepayan Sarkar
On Thu, Nov 19, 2009 at 6:30 PM, Ted Harding wrote: > See Addendum at end. [...] > Addendum: > > Well, the fonts were installed as above, indeed. However, according > to the PLoS Guidelines one must generate .afm files before using > them in R, along the lines of: > >  First, convert the Arial .

Re: [R] PLoS, Arial, R & linux

2009-11-19 Thread Deepayan Sarkar
On Thu, Nov 19, 2009 at 4:30 PM, Ted Harding wrote: > Greetings All. > According to the PLoS (Public Library of Science) Guidelines > for Figure preparation, if a figure is submitted as EPS rather > than TIFF then "Figure text must be in Arial font" -- see: > > [1] > http://www.plosntds.org/static

Re: [R] How do I change the colour and format for the trelli plot ?

2009-11-18 Thread Deepayan Sarkar
On Thu, Nov 19, 2009 at 6:03 AM, ychu066 wrote: > > http://old.nabble.com/file/p26418382/hist1.png hist1.png  i want three plots > along on the side , how to i do that ? > >  and I also want to change the colour of the bars for each plot, how do i do > that ? > > i got the code here to draw that .

Re: [R] specifying group plots using panel.groups

2009-11-18 Thread Deepayan Sarkar
On Mon, Nov 16, 2009 at 9:47 PM, wintere wrote: > > Hi, > > I am trying to plot two types of data on the same graph: points and > distributions. I am attempting to use the panel.groups function, but cannot > seem to get it to work. I have a melted data set and put in a FLAG column to > separate my

Re: [R] lattice barchart

2009-11-18 Thread Deepayan Sarkar
On Tue, Nov 17, 2009 at 3:31 PM, Wilberforce wrote: > > I have a data frame with two factors and want to create panel barcharts with > one factor defining the panels and the other the vertical categories by > which I can count the rows of data in each combination of factors. How do I > do this? >

Re: [R] Lattice plot

2009-11-18 Thread Deepayan Sarkar
On Wed, Nov 18, 2009 at 4:14 AM, Tim Smith wrote: > Hi, > > I was trying to get a graph in lattice with the following data frame (7 rows, > 5 cols): > chr start1 end1 meth positive > 1   1     10   20  1.5        y > 2   2     12   18 -0.7        n > 3   3     22   34  2.0        y > 4   1     35

Re: [R] Licensing data sets

2009-11-13 Thread Deepayan Sarkar
On Fri, Nov 13, 2009 at 8:05 PM, Christian Lederer wrote: > Hi, > > i am working on a biosignal package which has a data set package > as dependency (e.g. for the examples). > This data set package will include patient data. > Of course, the patients will be asked for their informed > consent, and

Re: [R] barplot at specific x values

2009-11-12 Thread Deepayan Sarkar
On Thu, Nov 12, 2009 at 8:54 AM, Richard M. Heiberger wrote: > Bastian Pöschl wrote: >> >> Dear useRs, >> >> I search for a possibillity to plot stacked bars at specific x positions. >> I tried and tried, but the only way i got something adequate was by using >> lowlevel plots segments(). That is

Re: [R] How to remove/prevent trailing space after tab completion in R shell

2009-11-10 Thread Deepayan Sarkar
On Tue, Nov 10, 2009 at 11:09 AM, Peter Waltman wrote: > Hi - > > Not a mission critical issue, but still highly annoying.  I just upgraded R > to 2.10.0 (the binary for Ubuntu karmic) and the tab completion facility now > inserts a space after every completed term (something it didn't do in 2.9.0

Re: [R] How to properly shade the background panels of an xyplot?

2009-11-01 Thread Deepayan Sarkar
On Fri, Oct 30, 2009 at 8:33 PM, Ottorino-Luca Pantani wrote: > Dear R users, > this is a follow up of this message > http://tolstoy.newcastle.edu.au/R/e6/help/09/05/13897.html > I'm reproducing the core of it for convenience. > >> // >> / data(Oats, package = "MEMSS") / >> / tp1.oats <- xyplot(yi

Re: [R] insert a text in panels, always in the same position (lattice, ltext, ?prepanel?)

2009-10-30 Thread Deepayan Sarkar
On Fri, Oct 30, 2009 at 2:10 AM, Ottorino-Luca Pantani wrote: > Dear R-users, > my present problem is related to lattice. > > I would like to put some text in each panel, namely a p-value. > I therefore wrote a simple panel function as reported here below. > > I'm able to write the value in each p

Re: [R] Print several xyplots to the same page in a pdf file

2009-10-29 Thread Deepayan Sarkar
2009/10/27 Joel Fürstenberg-Hägg : > > Hello everybody, > > I'm using the lattice package and the xyplot to make several graphs like > below. However, I can just print the three grouped plots onto one page as I'm > putting them into a pdf-file, which gives me a huge amount of pages... Is it > po

Re: [R] PDF too large, PNG bad quality

2009-10-29 Thread Deepayan Sarkar
On Fri, Oct 23, 2009 at 1:54 AM, Jim Lemon wrote: > On 10/23/2009 06:07 AM, Lasse Kliemann wrote: >> >> I wish to save a scatter plot comprising approx. 2 million points >> in order to include it in a LaTeX document. >> >> Using 'pdf(...)' produces a file of size about 20 MB, which is >> useless.

Re: [R] FW: making a plot in xyplot

2009-10-29 Thread Deepayan Sarkar
On Mon, Oct 26, 2009 at 12:19 PM, Ordaz, Sarah wrote: > Hi, > I'd like to clarify my previous posting.  See below - my updates are noted > with *s > Thanks, > Sarah Ordaz > ord...@upmc.edu > > Hello, > > I am a newbie to the lattice package in R, and I'm trying to make a plot > using the xyplot

Re: [R] Exclude rows in xyplot

2009-10-29 Thread Deepayan Sarkar
On Tue, Oct 27, 2009 at 12:07 PM, Dieter Menne wrote: > > > > Joel Fürstenberg-Hägg wrote: >> >> >> >> Now I'm trying to make xyplots to compare the result from three different >> categories: >> >> # Plot Pro against Glc for each of the three categories >> xyplot(Pro ~ Glc | Categories_BBCH_I

Re: [R] xyplot does not find variable in data

2009-10-12 Thread Deepayan Sarkar
On Mon, Oct 12, 2009 at 9:32 AM, Jacob Wegelin wrote: > When we call a lattice function such as xyplot, to what extent does > the "data" designation cause the function to look inside the "data" > for variables? > > In the examples below, the "subset" argument understands that > "Variety" is a vari

Re: [R] lattice auto.key drop unused levels

2009-10-10 Thread Deepayan Sarkar
On Sat, Oct 10, 2009 at 5:51 PM, Peter Ehlers wrote: > The key will show the levels of the 'groups' factor. So you will > have to ensure that the factor fed to groups has the levels > that you want displayed. ?xyplot explicitly states that > drop.unused.levels will NOT do that for you. > > (Didn't

Re: [R] auto.key legend color different from actual plot

2009-10-10 Thread Deepayan Sarkar
On Sat, Oct 10, 2009 at 12:13 AM, Rene wrote: > Dear All, > > > > I have created a barchart, but the legend created by auto.key does not match > the actual graph. Can someone give me some hint here? > > > > For example, my coding are: > > > > Library(lattice) > > dataset.table <- > table(data.fram

Re: [R] subsetting key on qqmath

2009-10-10 Thread Deepayan Sarkar
On Thu, Oct 8, 2009 at 8:11 PM, John Field wrote: > Dear R list, > > The code below puts qq-plots for two of three groups on the one plot. >  However the legend includes all three groups, ie the auto.key ignores the > subset instruction.  Is there an easy way to get around this, so that only > tho

Re: [R] lattice: passing multiple lty values to the key/legend

2009-10-10 Thread Deepayan Sarkar
On Thu, Oct 8, 2009 at 10:52 AM, Folkes, Michael wrote: > hi all, > It's not clear to me how (or if) I can pass multiple values for lty to a key > in xyplot? > I've tried:  lines=list(lty=1:3), to no avail. > Do I need to use something other than auto.key? > (Deepayan, if you're out there, I have

Re: [R] xyplot#strips like ggplot?

2009-10-10 Thread Deepayan Sarkar
On Thu, Oct 8, 2009 at 6:54 AM, baptiste auguie wrote: > Hi, > > Try the useOuterStrips function in the latticeExtra package. ...which is discussed in section 11.5 of the Lattice book. -Deepayan > HTH, > > baptiste > > 2009/10/8 Christian Ritter : >> Dear all, >> >> I want to split the strips i

Re: [R] Plotting 1 covariate, 3 factors

2009-10-08 Thread Deepayan Sarkar
On Thu, Oct 8, 2009 at 1:57 AM, Paul Chatfield wrote: > > Cheers guys that's helpful.  Doug, you're right, my code for ff should have > been > > for (i in 1:length(y)) > {if (f1[i]=="after" & f3[i]==1) ff[i]<-"1, after" > else if(f1[i]=="after" & f3[i]==2) ff[i]<-"2, after" > else if(f1[i]=="befor

Re: [R] Problem using with panel.average in Lattice package

2009-10-07 Thread Deepayan Sarkar
e type="l" in panel.average/linejoin. -Deepayan > Regards, > Peter Ehlers > > Deepayan Sarkar wrote: >> >> On Fri, Oct 2, 2009 at 8:03 PM, Mark Dalphin >> wrote: >>> >>> Hi, >>> >>> I'm having a problem getting

Re: [R] update'ing trellis object

2009-10-04 Thread Deepayan Sarkar
On Sat, Oct 3, 2009 at 7:35 PM, David Winsemius wrote: > > On Oct 3, 2009, at 7:05 PM, Sebastian P. Luque wrote: > >> Hi, >> >> I thought the following would only remove the legend element of a >> trellis object, but it actually removes both the legend and key >> elements: >> >> ---<--

Re: [R] Problem using with panel.average in Lattice package

2009-10-04 Thread Deepayan Sarkar
On Fri, Oct 2, 2009 at 8:03 PM, Mark Dalphin wrote: > Hi, > > I'm having a problem getting the panel.average function to work as I > expect it to in a lattice plot. I wish to draw lines between the > averages of groups of y-values at specific x-values. I have created a > dataset below which is sim

Re: [R] changing number of axis

2009-10-04 Thread Deepayan Sarkar
might leave it, unless there is a simple way around this. Including absent points as NA-s will work to break the lines; not sure if that would be hard to do in your example. -Deepayan > > cheers > Dan > > On Tue, 2009-09-29 at 23:17 -0700, Deepayan Sarkar wrote: >> On T

Re: [R] Help for 3D Plotting Data on 'Irregular' Grid

2009-10-04 Thread Deepayan Sarkar
On Thu, Oct 1, 2009 at 6:38 AM, Lorenzo Isella wrote: > Dear All, > Here is what I am trying to achieve: I would like to plot some data in 3D. > Usually, one has a matrix of the kind > > y_1(x_1) , y_1(x_2).y_1(x_i) > y_2(x_1) , y_2(x_2).y_2(x_i) > .

Re: [R] xyplot key

2009-10-04 Thread Deepayan Sarkar
On Wed, Sep 30, 2009 at 6:54 AM, Andrewjohnclose wrote: > > Hi, > > I'm having trouble matching the symbols/color of the key to match those > specifiec in the plot. > > Here is the code I used: > > > xyplot(GCR+GCT ~ FRAC, data=RWF, type=c("g","p"),cex=1.2,pch=c(22,21), > xlab=expression(italic("f

Re: [R] Levelplot without margins

2009-10-04 Thread Deepayan Sarkar
On Mon, Sep 28, 2009 at 9:08 AM, Antje wrote: > I had a bit success with the following usage: > > my.padding <- list(layout.heights = list( >                        top.padding = 0, >                        main.key.padding = 0, >                        key.axis.padding = 0, >                    

Re: [R] Access to conditioning variables (lattice)

2009-10-04 Thread Deepayan Sarkar
On Thu, Sep 24, 2009 at 2:14 PM, Martin Lepage wrote: >> The problem I am facing is that I do not know how to generically access >> the conditioning variables within the panel function. In this simple >> case, I can achieve what I want to do with the following call : >> >>    do_something_with(Typ

Re: [R] Evaluating expresssions as parameter values

2009-09-30 Thread Deepayan Sarkar
On Tue, Sep 22, 2009 at 12:03 PM, Erich Neuwirth wrote: > I need to play games with an expression similar to the following one: > > print(xyplot(DepVar ~ Group|Covar, groups=Othergroup, >        data=mydf, pch = 18 ,main="Testcase",auto.key = TRUE)) > > > The problem is that  the formula argument

Re: [R] Lattice: combine the same strip?

2009-09-29 Thread Deepayan Sarkar
On Sat, Sep 19, 2009 at 3:36 PM, di jianing wrote: > Hello R helpers, > > I am producing a figure with dual strips, i.e., x~y | S1 + S2, where S1 and > S2 are two strips. For example, in figure 2.1 at > http://lmdvr.r-forge.r-project.org/figures/figures.html. > > In this case, I would like to comb

Re: [R] reducing space between charts in lattice graphics

2009-09-29 Thread Deepayan Sarkar
On Sat, Sep 19, 2009 at 9:42 AM, Larry White wrote: > Hi, > > I'm trying to create a lattice plot with three xyplots in one vertical > column. I would like to reduce the vertical space between the charts.  My > code is below. There seems to be a "between" parameter for lattice.options, > but I can

Re: [R] changing number of axis

2009-09-29 Thread Deepayan Sarkar
hat what I was > trying, a vertical line from y=0 to y=binvalue for each represented bin > seem most sensible, but I'm not sure how to go about this. > > thanks > Dan > > > On Tue, 2009-09-29 at 22:59 -0700, Deepayan Sarkar wrote: >> On Wed, Sep 16, 2009 at 2:02

Re: [R] lattice: How to display no box but only a y-axis on the left + Thicker lines

2009-09-29 Thread Deepayan Sarkar
On Fri, Sep 18, 2009 at 6:06 AM, baptiste auguie wrote: > No box is easy, > > bwplot(y~x, data=data.frame(y=rnorm(10),x=sample(letters[1:3],10,repl=T)), > par.settings=list(axis.line=list(col=NA))) > > but that seems to remove all axis lines and ticks as well. You may > have to define a custom pan

Re: [R] changing number of axis

2009-09-29 Thread Deepayan Sarkar
On Wed, Sep 16, 2009 at 2:02 PM, Dan Kortschak wrote: > Hi, I trying to produce a bar chart describing hits to specific bins by > chromosome for a large data set (I am asking here because > experimentation with options is precluded due to this - generating the > figure takes about an hour): > > ba

Re: [R] symbols(x,y, circles=sqrt(N)) with lattice xyplot

2009-09-14 Thread Deepayan Sarkar
On Mon, Sep 14, 2009 at 3:55 PM, Jacob Wegelin wrote: > How would I create the following plot using lattice? > > symbols( combPsummary$pastRate, combPsummary$finRate, > circles=sqrt(combPsummary$N) ) > > The idea is to plot finRate vs pastRate using circles whose areas are > proportional to the nu

Re: [R] Xyplot, multi line title via main, all lines left justified

2009-09-10 Thread Deepayan Sarkar
On Wed, Sep 9, 2009 at 2:53 PM, Afshartous, David wrote: > > All, > > Below is an xyplot plot with multiple panels and a title produced via main: > > library("lattic") > data.ex = data.frame(y = rnorm(10), t = rep(1:5, 2), group = rep(c(0,1), > each = 5)) > > xyplot(y ~ t | as.factor(group), data

Re: [R] Matrix as input to xyplot {lattice} - proper extended formula syntax

2009-09-06 Thread Deepayan Sarkar
On Sat, Sep 5, 2009 at 10:43 PM, Bryan Hanson wrote: > Thanks David, your way of constructing df is much more compact than what I > was using, so I've incorporated it.  I also had my rows and columns > transposed relative to how xyplot wanted them (though I had tested for that, > other problems int

Re: [R] Creating mixed line and point graphs with xyplot

2009-09-04 Thread Deepayan Sarkar
On Fri, Sep 4, 2009 at 8:28 AM, Paul Sweeting wrote: > Hi > > Well, I think the title says it all!  I've looked through the documentation > but I can't find a way of doing this.  The situation is that I have 4 series, > say a, b, c and d.  Series a and c are plotted on the lh y axis, series b and

Re: [R] Google's R Style Guide

2009-08-28 Thread Deepayan Sarkar
On Fri, Aug 28, 2009 at 10:02 AM, Kevin Wright wrote: > On Fri, Aug 28, 2009 at 11:49 AM, Duncan Murdoch wrote: > >> On 8/28/2009 12:33 PM, Kevin Wright wrote: [...] >> Now that doesn't sound like the browser.  Whatever debugger you are using >> has a bug. >> >> Duncan Murdoch >> >> > Ah, right y

Re: [R] table, xyplot, names, & loops

2009-08-25 Thread Deepayan Sarkar
On Tue, Aug 25, 2009 at 10:16 AM, w_poet wrote: > > Hi R community, > > I'm just starting out in R and have a basic question about xyplot and > tables. Suppose I had a table of data with the following names: Height, > Age_group, City. I'd like to plot mean Height vs Age_group for each City. > > Whe

Re: [R] allowing line wrap for long strip text in xyplot (lattice)

2009-08-25 Thread Deepayan Sarkar
On Mon, Aug 24, 2009 at 8:04 PM, Donald Boyd wrote: > Hi. Am brand new to R and to mailing lists - have never posted anywhere > before, so hope I do this right. > > Am using R 2.9.1 with lattice graphics (just installed, fully up to date). > > Am doing trellis xyplot with y (emp=employment), x (yea

Re: [R] adding points to a wireframe

2009-08-25 Thread Deepayan Sarkar
On Mon, Aug 24, 2009 at 4:27 PM, jebyrnes wrote: > > Hrm.  I have to admit, I don't entirely understand how to use the scaling, > and that seems like a lot of unneeded extra code.  It is what it is, though. That's true, and I think it would be easy enough to have a flag to panel.3dscatter etc. tel

Re: [R] Surpress one panel in lattice plot..?

2009-08-25 Thread Deepayan Sarkar
On Sun, Aug 23, 2009 at 5:41 PM, Ben Bolker wrote: > > > > Fredrik Karlsson wrote: >> >> Dear list, >> >> I have a two character vector with two different values in them (two >> each, that is). Naturally, when I use these vectors as grouping >> factors in a lattice plot, I get four panels. >> Now,

Re: [R] Lattice: How to do error bars

2009-08-22 Thread Deepayan Sarkar
On 8/11/09, Alex van der Spek wrote: > I am trying to add 2 stdev error bars to lattice type plots: > > panel.ebar<-function(x,y,dy=NULL,...) { > panel.xyplot(x,y,...) > panel.segments(x,y-dy,x,y+dy,...) > } > > Then: > > xyplot(y~x|fc,data=dat,dy=dat$dy,panel=panel.ebar) > >

Re: [R] adding points to a wireframe

2009-08-22 Thread Deepayan Sarkar
On 8/18/09, Jarrett Byrnes wrote: > A quick question. I'm trying to plot a surface from a fitted model along > with the original points, as in the following example: > > > df<-data.frame(expand.grid(100*runif(1:100), > 100*runif(1:100))) > df$Var3<-rnorm(length(df$Var1), mean=df$Var1*df$Var2, >

Re: [R] Retrieving x argument name from a trellis object

2009-08-14 Thread Deepayan Sarkar
--- > Vincenzo Luca Di Iorio > Consultant PME User support - GSK R&D Limited > --- > > > > "Deepayan Sarkar" > > 12-Nov-2008 07:04 > >

Re: [R] xyplot and subscripts

2009-08-13 Thread Deepayan Sarkar
On Thu, Aug 6, 2009 at 7:27 AM, Kito Palaxou wrote: > > Hi all, > > I have a data frame like this: > > DF <- data.frame(x = rnorm(10), y = rnorm(10), gr = rep(1:5, 2)) > > and I make the following xy-plot: > > library(lattice) > xyplot(y ~ x, data = DF, groups = gr, type = "b", col = 1) > > > Is it

Re: [R] SOLVED: Lattice: How to do error bars

2009-08-13 Thread Deepayan Sarkar
On Wed, Aug 12, 2009 at 7:19 AM, wrote: > Thank you Gerrit, > > Your suggestion proved right after all: > > This does put error bars (dy) on the points. You only need to figure out > the proper y axis scaling. > >> xyplot(y~x|f,data=xy,groups=dy,panel=function(x,y,groups,subscripts,...) > {panel.x

Re: [R] How to plot 3-D surface graph from lmer mixed models?

2009-08-13 Thread Deepayan Sarkar
On Thu, Aug 13, 2009 at 6:34 AM, willow1980 wrote: > > Dear Professor Murdoch, > That is exactly the difficulty for me. I don't know how to make a prediction > with lmer using "expand.grid"; at the moment, I can use > “mo...@x%*%fixef(model)” to get predicted values for existing observational > dat

Re: [R] Varying x-axis labels in lattice

2009-08-11 Thread Deepayan Sarkar
On Tue, Aug 11, 2009 at 6:30 AM, Frank E Harrell Jr wrote: > Dear Group: > > I want to use lattice with a formula such as y ~ x | v to plot a data frame > in which v varies to indicate which "x" is really being plotted. I know how > to make the x-axis scales vary with the panel but is it possible t

Re: [R] R help from command line

2009-08-11 Thread Deepayan Sarkar
On Tue, Aug 11, 2009 at 12:43 PM, Peng Yu wrote: > Hi, > > I frequently need to open multiple help pages in R, which requires the > start of multiple R sessions. I am wondering if there is a way to > invoke the help page from the command line just like 'man'. If you are feeling adventurous, you mi

Re: [R] multiple lty on same panel in xyplot

2009-08-09 Thread Deepayan Sarkar
On 8/7/09, Duncan Mackay wrote: > Hi RUsers > > I like to keep the plots self contained and avoid changing the current > device parameters by using the par.settings. > To see what I could achieve by using par settings I tried the following and > several variants but could not get black points. >

Re: [R] lattice: simultaneously control aspect & outer whitespace

2009-08-09 Thread Deepayan Sarkar
On 8/7/09, Jacob Wegelin wrote: > Suppose we wish to achieve the following three aims: > (1) Control the aspect ratio of our plot (i.e., tweak this till it looks > great) > > (2) Save the plot as a PDF with zero or minimal white space outside it. > > (3) Preserve this in code, so that in the f

Re: [R] Is there a 'vi' mode in R?

2009-08-07 Thread Deepayan Sarkar
On 8/6/09, Peng Yu wrote: > Hi, > > I'm wondering if R provide a vi mode in the command line just like > other shells such as bash do. Can somebody let me know? I've never used vi-mode, but vi mode in bash (at least) is provided by the readline library, and R uses the same library. If you set u

Re: [R] lattice dotplot: line height for multi-line labels

2009-08-07 Thread Deepayan Sarkar
On 8/7/09, boris.vasil...@forces.gc.ca wrote: > Dear R-users, > > I am looking for suggestions on how to control the line-height for > multi-line labels in lattice dotplot. > > In particular, in the dotplot produced by > > library(lattice) > aa <- c('A'=10,'B\nb'=20,'C'=30) > dotplot(aa) > >

Re: [R] Completion for custom "$" operator?

2009-08-07 Thread Deepayan Sarkar
On 8/7/09, Romain Francois wrote: > On 08/04/2009 10:02 PM, Deepayan Sarkar wrote: > > > On Tue, Aug 4, 2009 at 11:37 AM, Vitalie S. wrote: > > > > > Dear UseRs, > > > > > > I declared a `$` method for a S4 class. Can I have ab automatic > co

Re: [R] Completion for custom "$" operator?

2009-08-06 Thread Deepayan Sarkar
On Thu, Aug 6, 2009 at 10:45 AM, Vitalie S. wrote: > >> >> Completion should be automatic if you define names() to return the valid >> names. > > Thank you Deepayan, that works beautifully. I wonder though; names function > for environment objects always returns NULL, but completion still works. >

Re: [R] specify lattice black-and-white theme

2009-08-05 Thread Deepayan Sarkar
On Wed, Aug 5, 2009 at 6:27 PM, Jacob Wegelin wrote: > Is there a simple way to specify a theme or trellis (lattice) parameters so > that, in a multipanel (conditioned) plot, there is no color and in the > strips there is no shading? This is the effect achieved on page 124 of > Deepayan Sarkar's "L

Re: [R] multiple lty on same panel in xyplot

2009-08-05 Thread Deepayan Sarkar
On Wed, Aug 5, 2009 at 2:24 PM, Jacob Wegelin wrote: > On Wed, 5 Aug 2009, Deepayan Sarkar wrote: > >> On 8/5/09, Jacob Wegelin wrote: >>> I would like to use lattice graphics to plot multiple functions (or > groups >>>  or subpopulations) on the same plot r

Re: [R] multiple lty on same panel in xyplot

2009-08-05 Thread Deepayan Sarkar
On 8/5/09, Jacob Wegelin wrote: > I would like to use lattice graphics to plot multiple functions (or groups > or subpopulations) on the same plot region, using different line types "lty" > or colors "col" to distinguish the functions (or groups). > > In traditional graphics, this seems straigh

Re: [R] Transparency and trellis device

2009-08-05 Thread Deepayan Sarkar
On 8/5/09, pomc...@free.fr wrote: > Hi Deepayan, > > Thank for you reply. > I am a little bit confused now. In the one hand, the trellis.device function > has lost his bg argument as explained in the Note section of ?trellis.device, > but the background info provided by a theme does not seem t

Re: [R] Transparency and trellis device

2009-08-05 Thread Deepayan Sarkar
On 8/5/09, pomc...@free.fr wrote: > Just replying to bring back some attention on my post, which might have slept > through on Saturday. > > Thank you for your help. > > > - Mail Original - > De: pomc...@free.fr > À: r-h...@stat.math.ethz.ch > Envoyé: Samedi 1 Août 2009 15h48:24 GMT -

Re: [R] Completion for custom "$" operator?

2009-08-04 Thread Deepayan Sarkar
On Tue, Aug 4, 2009 at 11:37 AM, Vitalie S. wrote: > Dear UseRs, > > I declared a `$` method for a S4 class. Can I have ab automatic completion > for this operator in R? Lists and environment objects provide this feature > by default, but my object is an extension of "function" class which does not

Re: [R] wireframe color

2009-08-03 Thread Deepayan Sarkar
On Mon, Aug 3, 2009 at 9:36 AM, Marlin Keith Cox wrote: > Hello, hopefully simple question, but I cannot find the answer.  I need to > change the color from the standard default.  Still want the scaled colors, > but need different colors for different graphs. > > Code is: > > wireframe(z ~ y*x, mat

Re: [R] Defining different objects within a loop

2009-08-03 Thread Deepayan Sarkar
On Thu, Jul 30, 2009 at 3:09 PM, jimdare wrote: > > Dear R Users, > > I have a dataset that I have split by group.  For each group I plot a figure > using: > > for (i in splitdf){ > plot<-xyplot() > print(plot) > savePlot(filename=paste(i$Group[1]),type="pdf") > } > > This gives me

Re: [R] lattice shingle plot axis annotation

2009-08-03 Thread Deepayan Sarkar
On Thu, Jul 30, 2009 at 12:43 AM, Armin Goralczyk wrote: > Hello (R-)Experts > > I hope someone can help with this problem concerning axis annotation > of a lattice shingle plot. I want a plot with three shingles to > display some laboratory value over time. In the first panel over the > first few

Re: [R] dot plot with several points for 2 categories

2009-08-03 Thread Deepayan Sarkar
On Wed, Jul 29, 2009 at 9:11 AM, jaregi wrote: > > Hi Michael, Steve, and 1Rnwb, > > I'm very impressed by the quick replies on the mailer. Thanks a lot for your > suggestions. They worked very well. > > In general, I have to say that I'm a bit disappointed that in R, like in > Excel, one basically

Re: [R] Lattice xyplot: same scales within one factor

2009-08-03 Thread Deepayan Sarkar
On Mon, Jul 13, 2009 at 8:33 AM, OB wrote: > I am using R 2.8.1 and lattice to produce xyplots conditioned on > two factors. What I would like is to have the scales be free between values > of one factor, but some within. Thus, in this example, > > xyplot(mpg ~ disp | factor(gear) + factor(cyl), mt

Re: [R] xyplot: superpose 2 time series with different time intervals

2009-08-01 Thread Deepayan Sarkar
On Sat, Aug 1, 2009 at 7:26 AM, Gary Lewis wrote: > I could use some advice regarding xyplot. > > I've got 2 time series. Both cover approximately the same period of > time (ie, 1940 to 2009). But one series has annual data and the other > has monthly data. One refers to university enrollment; the

Re: [R] xyplot, panel.abline, from, to

2009-07-28 Thread Deepayan Sarkar
On Tue, Jul 28, 2009 at 6:58 AM, Peter Ehlers wrote: > David, > ?panel.abline does not indicate that 'from/to' are arguments to > that function. If you read the help page carefully, you'll see > that 'from/to' apply to panel.curve(). Perhaps you thought that > the '...' argument can take 'from/to';

Re: [R] how to change the "quantile" method in bwplot

2009-07-21 Thread Deepayan Sarkar
On Tue, Jul 21, 2009 at 7:47 AM, Jun Shen wrote: > Uwe, > > Thank you for your reply.  I am still not very clear about the meanings of > the arguments in the stats function.   To make it clearer, quantile() uses > type=7 as default method. I believe this is the method bwplot() uses to > calculate t

Re: [R] How to re-order panels and y-axis values in trellis display using lattice

2009-07-08 Thread Deepayan Sarkar
On Tue, Jul 7, 2009 at 3:03 PM, wrote: > Hi, > > I have been trying to re-order several items in a trellised barchart > display in lattice, but can't seem to figure it out. > > ###sample code, Stage and Colony have 2 and 3 levels respectively. > > barchart(Activity ~ Percent | Stage + Colony, data

Re: [R] Variable names in lattice XY-plot

2009-07-03 Thread Deepayan Sarkar
On Fri, Jul 3, 2009 at 1:02 PM, baptiste auguie wrote: > ?strip.custom > > > p <- > xyplot(acet+chol+ino+acetp ~ zp, > group=grp, > data=data, > type="l", > scales=list(relation="free"), > auto.key=list(title=" >> >> Neurotransmitters", border=TRUE)) > > > > update(p, strip

Re: [R] Two questions about the cloud function in the lattice package

2009-07-03 Thread Deepayan Sarkar
On Fri, Jul 3, 2009 at 10:02 AM, Martin Eklund wrote: > Hi, > > I have two questions regarding the cloud function in the lattice > package: > > 1) Is there a way to not print the surrounding frame (i.e. the square > surrounding the entire plot)? There is an example in the cloud help page that show

Re: [R] Getting identify() to work with lattice::cloud()

2009-07-02 Thread Deepayan Sarkar
On Thu, Jul 2, 2009 at 10:11 AM, Robert A. LaBudde wrote: > I don't seem to be able to put any syntax into identify() that gets it to > work with "lattice" cloud() graph: > > layout(1) > require('lattice') > cloud(g3 ~ g1 + g2, data=gapp, col = "blue", >  xlab='G1 Score', ylab='G2 Score', >  zlab='

Re: [R] another xyplot question

2009-07-02 Thread Deepayan Sarkar
On Wed, Jul 1, 2009 at 10:38 PM, jlfmssm wrote: > I have a data set like this > > ID=c("A","A","A","A","A","A","A","B","B","B","B","B","B","B") > s=c(1.1,2.2,1.3,1.1,3.1,4.1,4.2,1.1,2.2,1.3,1.1,3.1,4.1,4.2) > d=c(1,2,3,4,5,6,7,1,2,3,4,5,6,7) > t=c(-3,-1,0,1,2,3,4,-3,-2,-1,0,1,2,3) > > mydata<-data.

Re: [R] panel.text and saving to pdf

2009-06-26 Thread Deepayan Sarkar
On Fri, Jun 26, 2009 at 1:53 AM, Dieter Menne wrote: > Willem Vervoort usyd.edu.au> writes: > >> I am not sure what I am doing wrong, but I have some unexplained behaviour > when saving a lattice graph >> including text to a pdf file. The text seems to move around. It must have > something to do w

Re: [R] distinguish regression lines in grouped, black and white lattice xyplot

2009-06-24 Thread Deepayan Sarkar
On Wed, Jun 24, 2009 at 2:05 PM, Katharina May wrote: > That's a point. I justed wanted to provide an overview for myself to > see the tendencies in a direct comparement > and with an easy way to distinct them, but maybe the text panel can > help me with that... > > Well anyway, is it right that a

Re: [R] Identify groups by character point in xyplot legend

2009-06-23 Thread Deepayan Sarkar
On Tue, Jun 23, 2009 at 1:38 PM, nmset wrote: > > http://www.nabble.com/file/p24173983/groups.csv groups.csv > http://www.nabble.com/file/p24173983/groups.r groups.r > > Hello, > > Points of an xyplot can be identified to a particular group according to > 'sunflowers', a different one per group. Ho

Re: [R] Customize axis labels in xyplot

2009-06-23 Thread Deepayan Sarkar
On Mon, Jun 22, 2009 at 1:54 AM, nmset wrote: > > I have attached 2 files sample.csv and sample.r to illustrate the problem. No attachments came through. -Deepayan __ R-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE

Re: [R] Customize axis labels in xyplot

2009-06-21 Thread Deepayan Sarkar
On Sat, Jun 20, 2009 at 9:13 AM, nmset wrote: > > Hello, > > I'm plotting an xyplot where a continuous var recorded every min is plotted > on y, and time expressed as HH:MM:SS on x, as follows : > > xaxis=list(tick.number=12,rot=90) > lst=list(x=xaxis) > xyplot(upt$LOAD_1 ~ upt$TIME, data=upt, type

Re: [R] Adding site id to xyplot

2009-06-19 Thread Deepayan Sarkar
On 6/19/09, SEUNG CHEON HONG wrote: > Dear R Lists, > > Can anyone help me add site IDs (site: 1~50) directly to my xyplot. I have > 50 sites and collected observations from the sites at 13 different time > points. I want to look at the change of my observations in each site. I was > able to m

Re: [R] lattice: axis ticks, axis alignment and remove axis from plot

2009-06-19 Thread Deepayan Sarkar
On 6/18/09, Katharina May wrote: > Hi Sorn, > > thanks for your code. I guess I didn't really made myself very clear. > What I sort of looking for is a xyplot with both the x axis at the bottom > and y axis at the > left going through 0, but continuing in the positive and negative area > (fo

Re: [R] lattice logaritmic scale (basis "e" ), rewriting labels using xscale.component

2009-06-19 Thread Deepayan Sarkar
On 6/18/09, Katharina May wrote: > Hi there, > > sorry for troubling everybody once again, I've got a problem rewriting > Sarkar's function for > rewriting the tick locations in a logaritmic way (s. > http://lmdvr.r-forge.r-project.org/code/Chapter08.R): > > His example works for log 2 but I

Re: [R] question about adding plots in a grid (lattice package)

2009-06-19 Thread Deepayan Sarkar
On 6/16/09, Marion Dumas wrote: > Hello! > I am starting to use the lattice package. I generated an xyplot conditioned > on a factor that has three levels: hence I get three plots in three panels > spaces and one is left empty. I would like to add a plot to the empty panel > space. Is it possible

Re: [R] xyplot format axis

2009-06-16 Thread Deepayan Sarkar
On Tue, Jun 16, 2009 at 7:24 AM, taz9 wrote: > > Hi All, > > I'm trying to format the y-axis in an xyplot to show numbers with a comma > separating the thousands but I'm not able to do it using formatNum(y, > big.mark=","). This is what I have: > > library(lattice) > > year<-c(2003,2004,2005,2006,2

Re: [R] using lattice dotplot with two equal data points

2009-06-16 Thread Deepayan Sarkar
On Fri, Jun 12, 2009 at 10:54 AM, Chosid, David (FWE) wrote: > I'm wondering if I am dealing with a limitation in lattice. It's > probably due to my own limitations though. > > I'm working with a lattice dotplot. The x-axis is set at "free". In > one panel, there are only two data points that ha

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