-Original Message-
From: Uwe Ligges [mailto:lig...@statistik.tu-dortmund.de]
Sent: Tuesday, September 29, 2009 4:52 AM
To: Nair, Murlidharan T
Cc: r-help@r-project.org
Subject: Re: [R] error while plotting
Nair, Murlidharan T wrote:
>
> -Original Message-
> From: U
[mailto:dwinsem...@comcast.net]
Sent: Monday, September 28, 2009 2:57 PM
To: Nair, Murlidharan T
Cc: r-h...@stat.math.ethz.ch
Subject: Re: [R] 3D to 2D projection
On Sep 28, 2009, at 1:41 PM, Nair, Murlidharan T wrote:
> David,
> Have you used persp or trans3d before?
Yes, both.
persp require
Thank you for this info. I think this has what I need.
Cheers../murli
-Original Message-
From: hadley wickham [mailto:h.wick...@gmail.com]
Sent: Monday, September 28, 2009 2:27 PM
To: Nair, Murlidharan T
Cc: David Winsemius; r-h...@stat.math.ethz.ch
Subject: Re: [R] 3D to 2D projection
-Original Message-
From: Uwe Ligges [mailto:lig...@statistik.tu-dortmund.de]
Sent: Sunday, September 27, 2009 1:17 PM
To: Nair, Murlidharan T
Cc: r-help@r-project.org
Subject: Re: [R] error while plotting
Nair, Murlidharan T wrote:
> I am getting the following errors when I am try
r$z[(endPt1+1):(endPt1*2)],type="l")
s3d$points3d(dnaStr$x[(endPt1*2+1):(endPtlength)],dnaStr$y[(endPt1*2+1):(endPtlength)],dnaStr$z[(endPt1*2+1):(endPtlength)],type="l")
-Original Message-
From: David Winsemius [mailto:dwinsem...@comcast.net]
Sent: Saturday, September 26, 2009
, Murlidharan T
Cc: r-help@r-project.org
Subject: Re: [R] error while plotting
Nair, Murlidharan T wrote:
> I am getting the following errors when I am trying to plot the data below. I
> cannot figure out the error.
> Error in plot.window(...) : need finite 'xlim' values
> In addi
Is there a method that I can use to convert 3D coordinates into 2D? I was
looking at persp and trans3d. Are those the ones I should be looking at ?
Thanks ../Murli
__
R-help@r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo/r-help
PLEASE
I am getting the following errors when I am trying to plot the data below. I
cannot figure out the error.
Error in plot.window(...) : need finite 'xlim' values
In addition: Warning messages:
1: In min(x) : no non-missing arguments to min; returning Inf
2: In max(x) : no non-missing arguments to ma
suggestion.
Thanks .../Murli
From: r-help-boun...@r-project.org [r-help-boun...@r-project.org] On Behalf Of
Nair, Murlidharan T [mn...@iusb.edu]
Sent: Thursday, September 24, 2009 2:06 PM
To: r-help@r-project.org
Subject: [R] multicomp plotting
I
I am trying to plot my multiple comparison data. Can anyone give me some input
of the error I am getting. The data and code is appended below.
Thanks ../Murli
library(multcomp)
sig.data<-structure(list(X = 1:63, Cell.lines = structure(c(1L, 6L, 13L,
25L, 33L, 42L, 2L, 7L, 14L, 26L, 34L, 43L
___
From: r-help-boun...@r-project.org [r-help-boun...@r-project.org] On Behalf Of
Nair, Murlidharan T [mn...@iusb.edu]
Sent: Wednesday, September 23, 2009 5:11 PM
To: Greg Snow; Henrique Dallazuanna
Cc: r-help@r-project.org
Subject: Re: [R] dotchart to barplots
Thanks Greg. I was also thinking about it after I saw my plots.
Cheers../Murli
-Original Message-
From: Greg Snow [mailto:greg.s...@imail.org]
Sent: Wednesday, September 23, 2009 3:49 PM
To: Nair, Murlidharan T; Henrique Dallazuanna
Cc: r-help@r-project.org
Subject: RE: [R] dotchart to
Guess, I miss the argument when I ?barplot.
Cheers../Murli
-Original Message-
From: Peter Ehlers [mailto:ehl...@ucalgary.ca]
Sent: Wednesday, September 23, 2009 3:56 PM
To: Nair, Murlidharan T
Cc: r-help@r-project.org
Subject: Re: [R] dotchart to barplots
Murli,
Two points:
1. I
Thanks Peter. Where did you find that option? It's really cool
Cheers../Murli
-Original Message-
From: Peter Ehlers [mailto:ehl...@ucalgary.ca]
Sent: Wednesday, September 23, 2009 3:56 PM
To: Nair, Murlidharan T
Cc: r-help@r-project.org
Subject: Re: [R] dotchart to barplots
The journal wants black and white only :)
-Original Message-
From: Henrique Dallazuanna [mailto:www...@gmail.com]
Sent: Wednesday, September 23, 2009 3:41 PM
To: Nair, Murlidharan T
Cc: r-help@r-project.org
Subject: Re: [R] dotchart to barplots
Perhaps a white border:
barplot(t
ct.data[,1], cex.axis = 0.7, cex.names = 0.7, las=2)
On Wed, Sep 23, 2009 at 4:26 PM, Nair, Murlidharan T wrote:
> Ok, I could make it perpendicular by specifying las=2
>
> barplot(t(as.matrix(intersect.data[,2:5])),
> beside = T, horiz = T,
> names.arg = intersect
-
From: r-help-boun...@r-project.org [mailto:r-help-boun...@r-project.org] On
Behalf Of Nair, Murlidharan T
Sent: Wednesday, September 23, 2009 3:21 PM
To: Henrique Dallazuanna
Cc: r-help@r-project.org
Subject: Re: [R] dotchart to barplots
I had tried names.arg=c(intersect.data[,1]) so that was the
: Henrique Dallazuanna [mailto:www...@gmail.com]
Sent: Wednesday, September 23, 2009 3:09 PM
To: Nair, Murlidharan T
Cc: r-help@r-project.org
Subject: Re: [R] dotchart to barplots
Try this:
barplot(t(as.matrix(intersect.data[,2:5])),
beside = T, horiz = T,
names.arg
Hi,
I am trying to plot the following data so that it can be visually represented
well. I tried the dotchart but I felt it was too spread out. Then I tried the
barplot which is good enough for me. Is there a way to give the labels for the
y-axis as in the dot chart? Also, I feel the grey level
pts[2,],text=c("t"), adj = c(0.5, -1))
shade3d(cylinder3d(pts, radius=0.1, e2=rbind(c(1,0,0),c(1,0,0))), col="red")
Thanks for adj. The rgl package is absolutely wonderful. It is extremely useful
to me.
Cheers../Murli
____
From: Duncan Murdo
so that if I write the text at the exact same
coordinate of the sphere the text is above the sphere and can be seen?
Thanks ../Murli
-----Original Message-
From: r-help-boun...@r-project.org [mailto:r-help-boun...@r-project.org] On
Behalf Of Nair, Murlidharan T
Sent: Friday, August 14, 200
: Thursday, August 13, 2009 8:24 PM
To: Nair, Murlidharan T
Cc: r-help@r-project.org
Subject: Re: [R] joining two points in rgl
Nair, Murlidharan T wrote:
> Hi!!
>
> I need to draw a cylinder/tube joining two points. I am trying to make
> something presentable, I have been able to do it u
Hi!!
I need to draw a cylinder/tube joining two points. I am trying to make
something presentable, I have been able to do it using lines3d. But is it
possible to
increase the thickness of the lines? The size parameter does not work. Does any
one have any suggestions?
Thanks ../Murli
library
Ok, I was able to figure out one part by using rgl.spheres. I am still trying
to insert text using rgl.texts. Does any one have a simple example?
-Original Message-
From: r-help-boun...@r-project.org [mailto:r-help-boun...@r-project.org] On
Behalf Of Nair, Murlidharan T
Sent: Thursday
Hi!!
I need some help in using the correct required symbol when plotting my DNA
structure using rgl. I need to plot one strand using empty circles and the
other using filled circles and if possible have sequence in the center.
I tried using pch and lty but have not been able to get it to do wha
Greg Snow [mailto:greg.s...@imail.org]
Sent: Friday, July 24, 2009 12:41 PM
To: Nair, Murlidharan T; Hans W Borchers; r-h...@stat.math.ethz.ch; Bert
Gunter; 'Gabor Grothendieck'
Subject: RE: [R] computing the radius of an arc
There is a function "rsaga.local.morphometry" in the RSAGA
Kindly, post the solution to the problem, so that it will benefit others. An
example could would be great.
Cheers../Murli
-Original Message-
From: r-help-boun...@r-project.org [mailto:r-help-boun...@r-project.org] On
Behalf Of Erin Hodgess
Sent: Monday, July 27, 2009 1:33 PM
To: R help
n(0.46365)
proj2d.xy<-cbind(proj2D.x,proj2D.y)
colnames(proj2d.xy)<-c("x","y")
-Original Message-
From: r-help-boun...@r-project.org [mailto:r-help-boun...@r-project.org] On
Behalf Of Hans W Borchers
Sent: Friday, July 24, 2009 5:41 AM
To: r-h...@stat.math.ethz.ch
Subje
Hi!!
I am interesting in computing the radius of an arc that best approximates a
curve. Is there an R function that I can use to draw an arc?
Nothing useful came up when I searched help.search. Does anyone have any
suggestion to do this?
Thanks ../Murli
___
n expert in the area.
Cheers../Murli
-Original Message-
From: dmba...@gmail.com [mailto:dmba...@gmail.com] On Behalf Of Douglas Bates
Sent: Wednesday, July 15, 2009 7:29 AM
To: Nair, Murlidharan T
Cc: r-help@r-project.org
Subject: Re: [R] Matrix multiplication precision
On Wed,
Hi!!
I am trying to multiply 5 matrices and then using the inverse of that matrix
for further computation. I read about precision problems from the archives and
the suggestion was to use as.numeric while computing the products. I am still
having problems with the results. Here is how I am using
To: Nair, Murlidharan T
Cc: r-help@r-project.org
Subject: Re: [R] Trig functions strange results
FAQ 7.31
This is what happens with floating point number and you are only
printing out 7 digits of precision; look at the results
> cos(-1.570796)
[1] 0.003267949
> cos(-1.5707961)
I am trying to calculate coordinate transformations and in the process of
debugging my code using debug I found the following
Browse[1]> direction[i]
[1] -1.570796
Browse[1]> cos(direction[i])
[1] 6.123032e-17
Browse[1]> cos(-1.570796)
[1] 3.267949e-07
Browse[1]> direction[i]
[1] -1.570796
Browse
I am trying split a string and use one part of it to label graphs. I am using
strsplit for that. While I am able to split it, how do I access the separated
parts.
> filName<-"chrI_2223"
>part<- strsplit(filName,"\\_")
> part
[[1]]
[1] "chrI" "2223"
> part[1]
[[1]]
[1] "chrI" "2223"
I looked up
-Original Message-
From: Uwe Ligges [mailto:lig...@statistik.tu-dortmund.de]
Sent: Thursday, May 14, 2009 4:44 AM
To: Nair, Murlidharan T
Cc: r-help@r-project.org
Subject: Re: [R] scatterplot3d
Nair, Murlidharan T wrote:
> Does anyone have any suggestion on this? I tried par(new
Does anyone have any suggestion on this? I tried par(new="T") It does not seem
to work with scatterplot3d. Any suggestion is appreciated.
Cheers../Murli
-Original Message-
From: r-help-boun...@r-project.org [mailto:r-help-boun...@r-project.org] On
Behalf Of Nair, Murlidha
Hi!!
I am interested in plotting 3 different (x,y,z) coordinate sets on the same
plot. How do I achieve using scatterplot3d?
Is there an easy method to call to change the projection or rotate the figure
along a particular axis? The following is the code that plots if one at a
time. Any help i
I want the levels to appear in the boxplot instead of 1 and 2. What do I need
to do for that? Here is the dummy code.
x<-runif(100,50,80)
x1<-runif(100,70,80)
True.positives<-c(x,x1)
splice<-factor(c(rep("Human.AA.200",100),rep("Human.AA.100",100)))
splice<-factor(splice,levels=c("Human.AA.200
I am using kernlab to build svm models. I am not sure how to access the
different slots of the object. For instance if I want to get the nuber of
support vectors for each of model I am building and store it in a vector.
>ksvm.model <- ksvm(Class ~ ., data = somedata,kernel = "vanilladot", cross
Anny,
You can also do the following
plot(0:10, 0:10, pch=16, type="h")
Cheers../Murli
-Original Message-
From: [EMAIL PROTECTED] [mailto:[EMAIL PROTECTED] On Behalf Of Peter Alspach
Sent: Sunday, September 07, 2008 5:10 PM
To: Anny Huang; r-help@r-project.org
Subject: Re: [R] how to dra
I have a data frame containing sequences and I am interested in changing a few
sequences in a window and the swapping the original sequence back after I have
completed my analysis.
My temporary data frame that I am creating seq.in.window does not like the way
I am making me assignment. The vari
Dani,
You can put text on your graphs using the locator function. Here is an example
hist(rnorm(1000,0,1) #plots a histogram for you
xy.cord<-locator(1) #Once you give this click on the graph to get the
coordinates
text(xy.cord, "Text you want to write")
Hope this helps.
Cheers../Murli
-
I am getting a really strange error when I am using predict on an ksvm model.
The error is "Error in .local(object, ...) : test vector does not match model
!". I do understand that this happens when the test vectors do not match the
Model. But in this case it is not so. I am attaching a portion
___
From: [EMAIL PROTECTED] [EMAIL PROTECTED] On Behalf Of Nair, Murlidharan T
[EMAIL PROTECTED]
Sent: Wednesday, July 02, 2008 2:02 PM
To: r-help@r-project.org
Subject: [R] heatmap
I am interested in plotting a matrix of data using heatmap to reflect frequency
of positional occu
I am interested in plotting a matrix of data using heatmap to reflect frequency
of positional occurrence of certain strings. I am not interested in clustering
them. I also want to make a key for the colors.Can someone help me with that.
I am appending a portion of my data here.
Thanks ../Murli
e vector of size 1.2 Gb.
Is my usage wrong ?. I am running this under linux serve 6850 which has about
8Gb memory
Any would be appreciated.
Cheers../Murli
From: [EMAIL PROTECTED] [EMAIL PROTECTED] On Behalf Of Nair, Murlidharan T
[EMAIL PROTECTED]
Sent: We
Hi!!
I am trying to figure out how to use the string kernel "stringdot" in kernlab.
k <- function(x,y) {
(sum(x*y) +1)*exp(-0.001*sum((x-y)^2))
}
class(k) <- "kernel"
data(promotergene)
## train svm using custom kernel
gene.k <- ksvm(Class~.,data=promotergene,kernel=k,C=10,cross=5) # works
Thanks! I put the labels as follows
dotchart(as.matrix(intersect.data[-1]), labels=intersect.data[,1], cex=0.8)
Murli
From: Henrique Dallazuanna [EMAIL PROTECTED]
Sent: Wednesday, June 04, 2008 1:49 PM
To: Nair, Murlidharan T
Cc: r-help@r-project.org
I am trying to plot the following data using dotchart
intersect.data<-structure(list(X = structure(c(1L, 3L, 8L, 9L, 10L, 11L, 12L,
13L, 14L, 15L, 2L, 4L, 5L, 6L, 7L), .Label = c("1-100", "1001-1100",
"101-200", "1101-1200", "1201-1300", "1301-1400", "1401-1500",
"201-300", "301-400", "401-500", "
How do I define the incremental step in a "for" loop?
for (j in 1:10){
cat(j, "\n")
}
In the above example, if I want to increment j by 2 where do I specify that?
Thanks
[[alternative HTML version deleted]]
__
R-help@r-project.org mail
Is there a method to list the components of an object, instead of looking at
the help for that method? Let me be more clear with an example
data(iris)
## tune `svm' for classification with RBF-kernel (default in svm),
## using one split for training/validation set
obj <- tune(svm, Species
Oh yes, that's what I was looking for. I can then do a
Class1<-rbind(Informative.data, Uninformative.data)
Thanks ../Murli
-Original Message-
From: Henrique Dallazuanna [mailto:[EMAIL PROTECTED]
Sent: Wednesday, February 06, 2008 3:06 PM
To: Nair, Murlidharan T
Cc: [EMAIL P
I am trying to generate artificial data for feature selection. Basically
trying to generate a total of 1000 features with 100 that are informative and
rest are uninformative.
Informative.data.class1<-rnorm(100,0.25,1)
Uninformative.data.class1<-rnorm(900,0,1)
Informative.data.class2<-rnorm(100,
I am interested in generating simulated data for demonstrating sampling
distribution of the mean difference between non-independent paired measures. Is
there an elegant way do generate non-independent data sets?
Thanks ../Murli
[[alternative HTML version deleted]]
___
ay no adjustments to be applied or does it
have to do with attributes typeof? I would appreciate if you could clarify
this for me. Thanks.
Cheers../Murli
-Original Message-
From: Richard M. Heiberger [mailto:[EMAIL PROTECTED]
Sent: Wednesday, October 24, 2007 12:34 AM
To: Nair,
I am trying to plot a large set of multiple comparison data from a csv file. I
used to do in the following manner, but its giving me an error now, and I am
not sure what correct. I have put the data in the code using the output from
dput for completeness. Can anyone help me with my mistakes? Tha
Hi!!
I am trying to generate data with specific correlation using corgen method from
the ecodist package. It does not seem to generate the data properly. I am
listing the code below. Secondly, when I put the code given below all in one
file and source it, it is unable to complete the task. But
Thanks to all for their suggestions!!
Cheers../Murli
-Original Message-
From: Gabor Grothendieck [mailto:[EMAIL PROTECTED]
Sent: Thursday, October 04, 2007 3:30 PM
To: Nair, Murlidharan T
Cc: [EMAIL PROTECTED]
Subject: Re: [R] combining vectors on unequal length
Assuming they are
If I have two vectors
X<-1:10
Y<-1:5
When I combine them using cbind, the shorter one is repeated and both are made
of the same length. Is there a methods that does this without duplicating the
shorter one. I want to use this to store the data back to a file.
Thanks ../Murli
[[alterna
-Original Message-
From: Deepayan Sarkar [mailto:[EMAIL PROTECTED]
Sent: Monday, September 17, 2007 5:10 PM
To: Nair, Murlidharan T
Cc: [EMAIL PROTECTED]
Subject: Re: [R] MAD
On 9/17/07, Nair, Murlidharan T <[EMAIL PROTECTED]> wrote:
>
> I am calculating the median absolu
I am calculating the median absolute deviation using mad function, and
it tends to ignore the parameter constant=1, when I am calculating it
for x=seq(1:5). Am I missing something here?
x<-seq(1:5)
mad(x)# gives [1] 1.4826
mad(x, constant=1)# gives [1] 1
#Here is the long form
dev.from.median<-ab
61 matches
Mail list logo
