In our dataset the samples/object are number of patients which is 128 and we
are dealing with 12,625 genes which is our
attributes of the dataset. So, it is obvious that if I calculate the
correlation matrix of (128 * 12,625) the resulted dimension of the
correlation matrix will be (12,625 *
On 05/29/2012 08:02 PM, Fabrice Tourre wrote:
Dear list,
I want to run two independent calculation (A, B) and then combined
their results to do a plot in R. Before I just run calculation A
first, then calculation B. It will take some times. I just have one
server with multiple core. I noticed
On Tue, 29 May 2012, Mabille, Geraldine wrote:
snip
In the second example, the authors state the presence of at least two
breakpoints. When plotting the F-statistics using the following code, we see
indeed two peaks in the F-statistics, that coincides with the dates given by
the authors: c.a
Hi Jim,
thanks for that, works perfectly.
m
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On May 29, 2012, at 17:55 , maxbre wrote:
Given this example
#start code
a-c(0,70,50,100,70,650,1300,6900,1780,4930,1120,700,190,940,
760,100,300,36270,5610,249680,1760,4040,164890,17230,75140,1870,22380,5890,2430)
b-c(0,0,10,30,50,440,1000,140,70,90,60,60,20,90,180,30,90,
On May 29, 2012, at 17:55 , maxbre wrote:
Given this example
#start code
a-c(0,70,50,100,70,650,1300,6900,1780,4930,1120,700,190,940,
760,100,300,36270,5610,249680,1760,4040,164890,17230,75140,1870,22380,5890,2430)
b-c(0,0,10,30,50,440,1000,140,70,90,60,60,20,90,180,30,90,
On 30/05/2012 00:23, jalantho...@verizon.net wrote:
I have R 2.15.0 running under Windows 7. I installed the igraph 0.5.4 package from a zip file. When
I attempt to load igraph using library(igraph), I get the error package igraph is not
installed for arch=x64. When I repeat this using the
On 30/05/2012 04:02, Fabrice Tourre wrote:
Dear list,
I want to run two independent calculation (A, B) and then combined
their results to do a plot in R. Before I just run calculation A
first, then calculation B. It will take some times. I just have one
server with multiple core. I noticed that
See
http://cran.r-project.org/web/checks/check_results_odfWeave.html
which indicates the package has some problems. Hence CRAN does not make
binaries available. Please contact the maintainer.
Best,
Uwe Ligges
On 29.05.2012 16:23, stephenb wrote:
R version 2.15.0 (2012-03-30)
Copyright
On 29.05.2012 17:27, Steven Lacey wrote:
Hi,
I am hoping to use the RODBC package to write a dataframe to an Excel .xlsx
file. The dataframe contains at least one field with character elements
that exceed 255 bytes, which appears to be the cell width limit in Excel.
Below is example code and
On 29.05.2012 18:52, Emiliano Zapata wrote:
This is my current version of R:
R version 2.15.0 (2012-03-30)
Copyright (C) 2012 The R Foundation for Statistical Computing
ISBN 3-900051-07-0
Platform: x86_64-pc-mingw32/x64 (64-bit)
OS: Windows
I get the following:
memory.size()
[1] 23.04
Dear Alex,
I'm cc'ing this to the mixed models list which is more appropriate for the
question. Please send all follow up posts only to that list.
First a few more general remarks.
- You are using the data argument of glmmPQL. So there is no need to attach()
the data.frame. I recommend avoid
Hello,
currently I'm working on a model based on Monte-Carlo-Simulations.
I observed that a generated normal distributed times series using
rnorm(100,mean=0,sd=1)
is far away from being not autocorrelated.
Is there any other gerenator implemented in R, which might solve my problem?
--
View
Please give a reproducible example when making bold statements.
I find no evidence of autocorrelation in
set.seed(12345)
x - rnorm(100, mean = 0, sd = 1)
acf(x)
x - rnorm(1e6, mean = 0, sd = 1)
acf(x)
ir. Thierry Onkelinx
Instituut voor natuur- en bosonderzoek / Research Institute for Nature
Hy guys,
I have built a 3dimentional array that is meant to be a 3D landscape
for my simulation game.
Do you know if there is some package that allow me to plot the image?
I am looking at all 3D plots but nothing seems to be right. Should I
use the rgl package?
Thank you very much
Marianna
maybe the package DAKS can be of any help.
-Ursprüngliche Nachricht-
Von: r-help-boun...@r-project.org [mailto:r-help-boun...@r-project.org] Im
Auftrag von Christian Kampichler
Gesendet: Dienstag, 29. Mai 2012 15:50
An: r-help@r-project.org
Betreff: [R] Package for partially ordered sets
Hi All,
Where can i download Rcurl package for windows.
Regards,
Santosh
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results - mra(x$w1mcp, filter = d4, n.levels = 3, boundary =
periodic, method = dwt)
write.csv(results, c:/mydata.csv)
Error in as.data.frame.default(x[[i]], optional = TRUE) :
cannot coerce class 'structure(mra, package = wavelets)' into a
data.frame
I am not able to access data stored in
Em 29/5/2012 17:42, John Smith escreveu:
Dear R users,
I am trying to use xyplot to draw group mean and CI. The following is the
sample code.
[attached code snipped]
Did you try the plotmeans function from the gplots package?
But I want:
1. Use different colors and symbols to draw
Hi,
I am new in R,
i have a matrix like this
MyMatrix -
*ABC PQRXYZ*
10 2030
40 5060
70 8090
And, i have an array containing some conditions like this,
MyArray - c(*ABC*50,*PQR*50,*ABC*30 * XYZ*40)
ABC50
PQR50
ABC30 XYZ40
My purpose what is,
Yes, there was a typo in my message. The problem remains.
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PLEASE do read the posting guide
Geraldine,
They really are the same fit, try...
range(fitted(b)-fitted(b1))
[1] -3.333782e-10 4.173699e-10
... for example.
The edf differences are just down to differences in how identifiability
constraints are handled in the two cases. For b1 the smooths of x2 do
not have centring
Hi,
What is quickest way to learn R? I am unnecessarily having fear of learning
R.
rgds
Parag Kulkarni
Haridwar,India
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Hello all,
I have searched and have not yet identified a solution so now I am sending
this message. In short, I need to split my data into training, validation,
and testing subsets that keep all observations from the same sites together
preferably as part of a cross validation procedure. Now
Thank you. This version worked.
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PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
and provide
Google.com - “cran rcurl“
windows binary not available - read me
skip through file, find:
“Packages
GLMMGibbs, RCurl, XMLRPC, XML, gridSVG, survnnet, yags
do not build out of the box or other special in other circumstances.
Nevertheless these are available at
these are two great books that helped me significantly.
Verzani, John. 2004. Using R for Introductory Statistics. Chapman Hall/CRC.
(here-
after JV)
Errata: http://wiener.math.csi.cuny.edu/UsingR/Errata/
John Fox and Sanford Weisberg. An R Companion to Applied Regression. Sage
Publications,
Well, what do you want it to look like?
My first thought was topography, but that can't be right because you
don't need a three-dimensional array for that.
So tell us more. What does your array contain, what's its structure,
and what kind of visualization are you trying to get?
Sarah
On Wed,
Hi,
On Wed, May 30, 2012 at 7:48 AM, Dinesh Vakamudi
dinesh.vakam...@gmail.com wrote:
results - mra(x$w1mcp, filter = d4, n.levels = 3, boundary =
periodic, method = dwt)
write.csv(results, c:/mydata.csv)
I have no idea what mra() is - from what package did it come? I see
there's a package
Like Thierrey I entirely disagree with you, but there are many PRNGs
in R -- take a look at ?RNGkind to change them.
Michael
On Wed, May 30, 2012 at 7:39 AM, juliane0212 stephan...@web.de wrote:
Hello,
currently I'm working on a model based on Monte-Carlo-Simulations.
I observed that a
On Tue, May 29, 2012 at 11:26 PM, mahdi mahd...@gmail.com wrote:
In our dataset the samples/object are number of patients which is 128 and we
are dealing with 12,625 genes which is our
attributes of the dataset. So, it is obvious that if I calculate the
correlation matrix of (128 * 12,625) the
Hi there,
I am not an expert, but simple experimentation using the acf() function
shows that your statement is not true (see ?acf and ?replicate for more
information):
foo - function(x) acf(x, plot = FALSE)$acf[,,1]
result - replicate(1, foo(rnorm(100)))
result - t(apply(result, 1, quantile,
You might try looking at demo(persp) as well.
Michael
On Wed, May 30, 2012 at 9:42 AM, Sarah Goslee sarah.gos...@gmail.com wrote:
Well, what do you want it to look like?
My first thought was topography, but that can't be right because you
don't need a three-dimensional array for that.
So
Tyrell,
If you want to have the folds contain data from only one site at a
time, you can develop a set of row indices and pass these to the index
argument in trainControl. For example
index = list(site1 = c(1, 6, 8, 12), site2 = c(120, 152, 176, 178),
site3 = c(754, 789, 981))
The first fold
Are the x variables all the same? if so, you can give lm a matrix as
the y variable and it will compute all the different regressions for
each column in the y matrix. The summary function will then return a
list with the summary information for each of the regressions.
If the x variables are
You have already had one response that
interpreted learn R as use R to do
statistics. I have a rather different
interpretation of learn R. An answer
to that interpretation (learn the
mechanics of the language) is:
http://www.burns-stat.com/pages/Tutor/hints_R_begin.html
If you search the web,
If you haven't done so you *must* read an Introduction to R. The only
reason this is a problem is Myarray is a character string, not a function
or expression to be evaluated. I think this will get you what you want
though:
# In the future use the output of ?dput to provide data to this list
Dear all,
The code below is used to generate interval censored data but unfortunately
there is an error with the ifelse which i am not able to rectify.
Can somebody help correct it for me.
Thank you
t-rexp(20,0.2)
v-c(0,m,999)
y-function(t,v){
z-numeric(length(t ((
s-numeric(length(t
Hi,
I'm trying to do a multiple events model using coxph. I need to choose which
covariates stay in the final model and i'm using anova but it seems that it
doesn't work with robust variances as a error message appears when I try to
do it:
Hi List
I have a series of zip archives each containing several files. One of these
files is called goCats.txt and I would like to read it into R from the archive.
It's a simple tab delimited text file.
pathToZip -
Hi,
The error with ifelse() seems to be that you have no idea what ifelse() does.
As far as I can tell, you tried to construct code that does something like this:
y-function(tdata,v){
z - rep(NA, length(tdata))
s - z
for(i in 1:length(tdata)) {
for(j in 1:length(v-1)) {
Iain -
Once you specify the file to unzip in the call to unz, there's no
need to repeat the filename in read.table. Try:
z - unz(pathToZip, 'goCats.txt', 'r')
zT - read.table(z, header=TRUE, sep='\t')
(Although I can't reproduce the exact error which you saw.)
On 2012-05-30 06:48, Sarah Goslee wrote:
Hi,
On Wed, May 30, 2012 at 7:48 AM, Dinesh Vakamudi
dinesh.vakam...@gmail.com wrote:
results- mra(x$w1mcp, filter = d4, n.levels = 3, boundary =
periodic, method = dwt)
write.csv(results, c:/mydata.csv)
I have no idea what mra() is - from what
Hi Phil
Thanks, but this still doesn't work.
Here's a reproducible example (was wrapping my head around these functions
before).
x - as.data.frame(cbind(rep('a',5), rep('b',5)))
y - as.data.frame(cbind(rep('c',5), rep('d',5)))
write.table(x, 'x.txt', sep='\t', quote=FALSE)
write.table(y,
Since your code has things like this:
z-numeric(length(t ((
either you have a serious problem with your email client or you need
to reread some introductory material and take a hard look at your
code.
Also note that g() doesn't work, because it contains the statement
return(m) but m is undefined
Can i know how to identify words ending with ing, say
playing,praying,remembering etc.
I want to remove such words using removeWords function.
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Hi!!
Thanks everybody...
It works with *filname - paste(C:/Bonos/, gsub(-, , Sys.date() ) ,
sep=)*
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#sample words
words - c(fixing,Dog,Carting,kite,running,playing)
#find words ending in 'ing'
result - regexpr(^[a-zA-Z]+ing$,words)
result
[1] 1 -1 1 -1 1 1
attr(,match.length)
[1] 6 -1 7 -1 7 7
attr(,useBytes)
[1] TRUE
# you can use result to take out the offending words:
new.words -
Can i know how to identify words ending with ing, say
playing,praying,remembering etc.
I want to remove such words using removeWords function.
Thanks,
Akshay
IIM Kozhikode
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My query comes from the background that I want to process my text and want to
remove all the proper nouns..
So, by tagPOS i can tag them as /NNP and then can remove those words from
the whole text.
So, if someone tell me How I can do that, that would be very helpful..!!
Thanks
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Thanx a lot Charlie
BUT
What if I have many sentences (not individual words), where I would want to
remove such words ?
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Dear all
I have a fairly funky problem that I think demands some sort of survival
analysis. There are two Red List assessments for mammals: 1986 and 2008.
Some mammals changed their Red List status between those dates. Those
changes can be regarded as events and are interval censored in the sense
hi,
i am trying to use the write.csv function but to give a dynamic file name
each time a different one
but i am getting an error that he cannot open the file :
TodayDate-UniqDate[1] ## this gives 04/02/2012
FileLocation-C:\\Trade Doc\\trade log\\Real account\\sys file\\Test
Data\\Data breaked to
Hello,
I was wondering if there is a way to make a prompt for the user (exactly
like raw_input() in Python), the response to which can then be used as an
object.
Thanks,
Abir
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Solved !
the problem was the date 04/02/2012
the / made him think there is more folders
thanks
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HI Antony,
I am not sure how you want the result.
Is it something like this? Also, do you have lots of conditions in the array?
Mydat2
ABC PQR XYZ ELIGIBLE_ABC ELIGIBLE_PQR ELIGIBLE_ABC_XYZ
1 10 20
30 TRUE
2 40 50
Perhaps readline()?
Best,
Michael
On Wed, May 30, 2012 at 2:31 PM, meatloafthefrog
meatloafthef...@gmail.com wrote:
Hello,
I was wondering if there is a way to make a prompt for the user (exactly
like raw_input() in Python), the response to which can then be used as an
object.
Thanks,
I have a data frame that has columns Semester, Student ID (SID), Subject,
Grade, Devel (Tor F). Students can have multiple records within a semester.
Right now, the columns are not considered factors.
I want to do an analysis that would show the number of students who received
particular
I think you're looking for xtabs [see the examples; they're quite
good] but I can't be sure: your printed object can't really exist in R
so I'm not sure what you have currently.
Michael
On Wed, May 30, 2012 at 3:25 PM, cassiorx cassiodo...@hotmail.com wrote:
I have a data frame that has columns
On May 30, 2012, at 1:04 PM, ilai wrote:
If you haven't done so you *must* read an Introduction to R. The only
reason this is a problem is Myarray is a character string, not a
function
or expression to be evaluated. I think this will get you what you want
though:
# In the future use the
On May 30, 2012, at 4:38 PM, R. Michael Weylandt wrote:
Perhaps readline()?
Or possibly ( depending on what exactly the undescribed Python
function does) ...
x - scan() # defaults to numeric but can be used for character
input with correct parameters
Best,
Michael
On Wed, May
On May 30, 2012, at 4:51 PM, R. Michael Weylandt wrote:
I think you're looking for xtabs [see the examples; they're quite
good] but I can't be sure: your printed object can't really exist in R
so I'm not sure what you have currently.
Michael
On Wed, May 30, 2012 at 3:25 PM, cassiorx
Hi all,
Given a table like the one below, I want to get a number of vectors equal to
the groups of connected ID (ID are considered connected if they are in the
same row). Each vector should contains all the connected ID .
e.g. In this case: vect1 (1,2,3) vect2 (5,6) vect3 (7,8,9)
If you haven't already look at Introduction to R, please follow this link
http://cran.r-project.org/doc/manuals/R-intro.pdf;. There are several books
which will teach you R, please look at online retailers like Amazon, Ebay
etc.,
Online search for specific task will also to help you to gather
Dear R help,
I have a dataset with 1's and 0's. Here, each row is the observation for an
insect. If the animal is present in light area at a particular time, response
is 1 and if it is present in dark area, the response is 0. I would like to do
some formating on the data for analysis. To
Hello,
The problem can be solved using graph theory tools.
library(igraph)
edg - read.table(text=
ID ID2
12
13
23
65
78
89
, header=TRUE)
(G - graph(t(edg) - 1, directed=TRUE)) # igraph vertices are zero-based
V(G)$name - 1:9
#V(G)$label - V(G)$name
#plot(G,
Hi A.K.,
Thank you for the example.
Here is one way:
dat[apply(dat, 1, function(x) x[1] == 1 length(rle(x)$values) 2), ]
See ?rle and ?apply for more details.
HTH,
Jorge.-
On Wed, May 30, 2012 at 5:45 PM, arun wrote:
Dear R help,
I have a dataset with 1's and 0's. Here, each row is
Hello,
Try the following.
ix - apply(dat, 1, function(x) x[1] == 1 sum(diff(x) != 0) 1)
dat[ix, ]
Hope this helps,
Rui Barradas
Em 30-05-2012 22:45, arun escreveu:
Dear R help,
I have a dataset with 1's and 0's. Here, each row is the observation for an insect. If the animal is present
On Wed, May 30, 2012 at 12:47 PM, Iain Gallagher
iaingallag...@btopenworld.com wrote:
Hi Phil
Thanks, but this still doesn't work.
Here's a reproducible example (was wrapping my head around these functions
before).
x - as.data.frame(cbind(rep('a',5), rep('b',5)))
y -
Hi,
I have a R Package. It is working, but I can't that it install the
dependencies automatically. When I try to install I receive this message:
install.packages(./RT4Bio_1.0.tar.gz,dependencies=TRUE)
Installing package(s) into '/usr/local/lib/R/site-library'
(as 'lib' is unspecified)
Iain -
Do you see the same behaviour if you use
z - unz(pathToZip, 'x.txt')
instead of
z - unz(pathToZip, 'x.txt','r')
- Phil Spector
Statistical Computing Facility
The code below is used to generate interval censored data but unfortunately
there is an
error with the ifelse which i am not able to rectify.
Can somebody help correct it for me.
Not quickly.
But cut() might do a large part of what you need with a
On May 30, 2012, at 6:36 PM, Ronaldo Reis Júnior wrote:
Hi,
I have a R Package. It is working, but I can't that it install the
dependencies automatically. When I try to install I receive this
message:
install.packages(./RT4Bio_1.0.tar.gz,dependencies=TRUE)
Installing package(s) into
Hi,
I have a vector like this:
DF - c(Aetna, Inc., Alexander's Inc., Allegheny Energy, Inc)
For each element in the vector I would like to remove the incorporated
info, so that my vector looks like this:
DF - c(Aetna, Alexander's, Allegheny Energy)
That means that I have to strip:
strip -
Thanks Jorge,
It worked.
A.K.
From: Jorge I Velez jorgeivanve...@gmail.com
To: arun smartpink...@yahoo.com
Cc: R help r-help@r-project.org
Sent: Wednesday, May 30, 2012 6:11 PM
Subject: Re: [R] Extracting rows from a dataset
Hi A.K.,
Thank you for the
I am a novice user of R and am stumbling on how to order a dataset
produced during my session.
I have a 1863 row X 14 column dataset that I want to put out to a file.
I want the output sorted by the first column and then by the second
column both in ascending order. The first column is
Hi all,
I Have a data frame test.. that I would like to convert into a list below
test_ but am unsure how to efficiently do this. I can do it in a for loop
but my data set is huge and it takes forever. Wondering how I can do this
more efficiently. So again how to I go from test.. to test_
I have a huge matrix of unspecified covariates and the corresponding sales
for them. What is the best way to predict the sales from the covariates?
Thanks,
Chris
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How can I perform cluster analysis using the mahalanobis distance instead of
the euclidean distance?
Thank you
Maria Froes
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If you want to sort by the columns with the names 'var1' and 'var2',
you would do:
newdata - data[order(data$var1, data$var2), ]
On Wed, May 30, 2012 at 6:07 PM, tony.anderson tony.ander...@noaa.gov wrote:
I am a novice user of R and am stumbling on how to order a dataset produced
during my
try this:
test.. - data.frame(Apples = c(1,3,0,0,1), Pears = c(0,0,1,0,2), Beans =
+ c(1,2,1,0,0))
lapply(seq(nrow(test..)), function(.row){
+ do.call(c, sapply(names(test..), function(.col){
+ rep(.col, test..[[.col]][.row])
+ }))
+ })
[[1]]
ApplesBeans
Apples Beans
Try this where you qualify how many characters you might match:
gsub(,{0,1} Inc[.]{0,1}, , DF)
[1] AetnaAlexander's Allegheny Energy
On Wed, May 30, 2012 at 6:05 PM, mdvaan mathijsdev...@gmail.com wrote:
Hi,
I have a vector like this:
DF - c(Aetna, Inc., Alexander's Inc.,
On Wed, May 30, 2012 at 4:07 PM, Chris Burns chris.bur...@gmail.com wrote:
I have a huge matrix of unspecified covariates and the corresponding sales
for them. What is the best way to predict the sales from the covariates?
Don't want to sound rude, but given your very vague problem
Hello,
I have a dataframe (Lx) with 5 Lb, and 5 Lw variables. I want to
create several variables according to the loop presented below (data
attached).
Lx - read.csv(Lx.csv, header=T, sep=,)
for (i in 1:20) {
Lx$sb1[i] - Lx$Lb1[i+1]/Lx$Lb1[i]
Lx$sb2[i] - Lx$Lb2[i+1]/Lx$Lb2[i]
Lx$sb3[i]
Thanks! That works like a charm, but I am not sure if I fully understand the
syntax. I looked at the gsub page but still couldn't figure it out. What
does the pattern part (,{0,1} Inc[.]{0,1}) do? What do the 0 and 1 within
the curly brackets refer to? Also, what if, for example, I would want to
Hi, and thanks in advance.
I have used the following to try to obtain singly-imputed values for missing
data comprising no more than 15%
of any variable in the data:
library(Hmisc)
some.df = read.csv(N:/.../some.csv, header = TRUE, stringsAsFactors = TRUE)
some.trans - transcan(~ contin.var1
Yea it was meant to be a vague question. I just wanted to see what some of
the answers were. It's for a project for school. We've done k nearest
neighbors, principal component analysis, partial least squares, and we'll
prob throw a random forest in there too.
Thanks
On Wed, May 30, 2012 at
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