Hi R users,
Working from a PC, I am trying to install the spatstat package on a Unix
cluster. I created the following PBS file to send a job array:
#!/bin/bash -ue
#PBS -m ae
#PBS -M my email
#PBS -J 1-45
#PBS -A my username
#PBS -N job name
#PBS -l resources
#PBS -l walltime
cd
I R-users,
I am trying to find the way to manipulate a character string to select a 4
digit number after some specific word/s. Example:
mytext - I do not want the first number 1234, but the second number 5678
Is there any function that allows you to select a certain number of digits (in
this
-
From: Steven Kennedy [mailto:stevenkennedy2...@gmail.com]
Sent: Friday, 26 August 2011 11:31 AM
To: Henrique Dallazuanna
Cc: Lorenzo Cattarino; r-help@r-project.org
Subject: Re: [R] string manipulation
You can split your string, and then only take the first 4 digits after
that (this is only
Hi R users
I was wondering on how to use lapply co when the applied function has a
conditional statement and the output is a 'growing' object.
See example below:
list1 - list('A','B','C')
list2 - c()
myfun - function(x,list2)
{
one_elem - x
cat('one_elem= ', one_elem, '\n')
random -
Hi R-users,
To automate the creation of scripts, I converted the code (example below) into
a character string and wrote the object to a file:
Repeat -
myvec - c(1:12)
cat('vector= ', myvec, '\n')
write (Repeat, 'yourpath/test.R')
the problem is that one line of the code is a cat command. In
Hi R users
I have these two vectors:
Row - sample(1:25, 10)
Col - sample(1:25, 10)
Is there a way to combine them into a list, whose first component is a
vector containing the first element of Row and the first element of Col,
the second component is a vector containing the second
Hi R users
I am wondering how I can avoid automatic coercion of my numeric vector
elements to character
init - c(age='N', R=as.numeric(0.5), S=as.numeric(0.8))
I have used as.numeric() but it does not seem to work
Thank you
Lorenzo
[[alternative HTML version deleted]]
):
[[2]]
[1] 0.28 0.45 0.59 0.69 0.80 0.87 0.95 0.94 0.98
and the position of course 2.
I am looking for the index because I would like to subset the list
afterwards (e.g. mylist[[2]]) and extract that element (i.e. the whole
vector).
Thanks for your help
Lorenzo
Lorenzo Cattarino
PhD
Hi R-users,
I am trying to estimate function parameters using optim(). My count
observations follows a Poisson like distribution. The problem is that I
wanna express the lambda coefficient, in the passion likelihood
function, as a linear function of other covariates (and thus of other
: Lorenzo Cattarino
Sent: Wednesday, 3 November 2010 2:22 PM
To: 'David Winsemius'; 'Peter Langfelder'
Cc: r-help@r-project.org
Subject: RE: [R] memory allocation problem
Thanks for all your suggestions,
This is what I get after removing all the other (not useful) objects and
run my code:
getsizes
-Original Message-
From: David Winsemius [mailto:dwinsem...@comcast.net]
Sent: Wednesday, 3 November 2010 12:48 PM
To: Lorenzo Cattarino
Cc: r-help@r-project.org
Subject: Re: [R] memory allocation problem
Restart your computer. (Yeah, I know that what the help-desk always
says.)
Start R before
I forgot to mention that I am using windows 7 (64-bit) and the R version
2.11.1 (64-bit)
Thank you
Lorenzo
From: Lorenzo Cattarino
Sent: Wednesday, 3 November 2010 10:52 AM
To: r-help@r-project.org
Subject: memory allocation problem
Hi R users
I am trying to run a non linear
Hi R users
I am trying to run a non linear parameter optimization using the
function optim() and I have problems regarding memory allocation.
My data are in a dataframe with 9 columns. There are 656100 rows.
head(org_results)
comb.id p H1 H2 Range Rep no.steps dist
in the target path), is that right?
Thank you a lot
Lorenzo
From: Lorenzo Cattarino
Sent: Wednesday, 3 November 2010 10:55 AM
To: 'r-help@r-project.org'
Subject: memory allocation problem
I forgot to mention that I am using windows 7 (64-bit) and the R version
2.11.1 (64-bit
Hi R-users
I am trying to use the GAM function of the mgcv package. But I am having
problem trying to specify the k parameter.
Although I managed to run some models by giving to the parameter some
(random) value, and it is explained by Wood (2006) that it does not seem
to really affect the
Hi R-users
I have a series of matrices and I would like to bind them together by
column using a loop (i.e. not writing cbind(matrix1,
matrix2,matrix3)). The reason is because in my real data set I have
a very large number of matrices.
Example:
matrix1 - matrix (1:12,4,3)
matrix2 -
/uqlcatta/pbs/result1.RData')))
path - '//atlas2/Research/Lorenzo Cattarino/PhD/myR/R_laboratory/'
output - paste(path, object.result, sep = )
write(paste(Apply,Save), paste(output, 'R', sep = .))
Start - Start + 120
End - End + 120
}
As you can see, apart from an extremely repetitive
Hi R-users,
I would like to create an expression without evaluating it. Then paste
that expression to an object. Example:
Result - paste('Result', 1, sep=)
paste(Result, substitute(apply(exp.des[1:10,], 1, one.row,
parms=parameters)), sep=-)
However this pastes EACH element of the
Hi R-users,
I have a problem running my R code on a Linux cluster. What I did was
write a .pbs file to instruct the cluster on what to do and how:
#!/bin/sh
#PBS -m ae
#PBS -M uqlca...@uq.edu.au
#PBS -A uq-CSER
#PBS -N job1_lollo
#PBS -l select=1:ncpus=1:NodeType=fast:mem=8GB
Hi R-users
I am having troubles accessing elements after the $ symbol. Reproducible
example:
test - data.frame (first=1:10, second=11:20, third=21:30)
test$first #this works fine
but when I try
interest - first
test$interest # does not seem to work
Could you tell me why that
Hi R-users
I can not change the name of one column only of my matrix.
my_matrix - matrix (1:12,ncol=3)
colnames(my_matrix)[1] - 'myname'
Error in dimnames(x) - dn :
length of 'dimnames' [2] not equal to array extent
thank you for your help
Lorenzo
Hi R-users
I would like to extract the random effects (1|SITE, 1+SPECIES|SITE
and BA|SITE) from this model formula:
Full_model - formula (VAR ~ (1|SITE) + (1+SPECIES|SITE) + (BA|SITE) +
HEIGHT + COND + NN_DIST)
I tried:
terms(Full_model)
labels(terms(Full_model))
but I could
).
Thanks
Lorenzo
From: Lorenzo Cattarino
Sent: Wednesday, 22 September 2010 5:23 PM
To: r-help@r-project.org
Subject: extracting random effects from model formula
Hi R-users
I would like to extract the random effects (1|SITE, 1+SPECIES|SITE
and BA|SITE) from this model formula
actually I need to extract the random effect from the formula, not the model
any idea?
From: Sacha Viquerat [mailto:sacha.v...@googlemail.com]
Sent: Wed 22/09/2010 5:55 PM
To: Lorenzo Cattarino
Subject: Re: [R] extracting random effects from model formula
Am
Hi,
I have the following matrix
cc - matrix (1:21, 3)
cc[,3:4]- 0
cc
[,1] [,2] [,3] [,4] [,5] [,6] [,7]
[1,]1400 13 16 19
[2,]2500 14 17 20
[3,]3600 15 18 21
and I would like to sum just the values in columns
with the three groups of five
values.
Many thanks
Lorenzo
Lorenzo Cattarino
PhD Candidate (Confirmed)
Landscape Ecology and Conservation Group
Centre for Spatial Environmental Research
School of Geography, Planning and Environmental Management
The University of Queensland
Brisbane
forth.
Thanks
Lorenzo
Lorenzo Cattarino
PhD Candidate (Confirmed)
Landscape Ecology and Conservation Group
Centre for Spatial Environmental Research
School of Geography, Planning and Environmental Management
The University of Queensland
Brisbane, Queensland, 4072, Australia
Hi r-users,
I have a matrix B and a list of 3x3 matrices (mylist). I want to
calculate the quantiles in the list using each of the value of B as
probabilities.
The codes I wrote are:
B - matrix (runif(12, 0, 1), 3, 4)
mylist - lapply(mylist, function(x) {matrix (rnorm(9), 3, 3)})
for
Hi Jim,
Thanks for your reply. Your codes does work but I was hoping to find a
way to use lapply and avoid the for loop.
Lorenzo
-Original Message-
From: Jim Lemon [mailto:j...@bitwrit.com.au]
Sent: Monday, 17 May 2010 8:27 PM
To: Lorenzo Cattarino
Cc: r-help@r-project.org
Subject: Re
[mailto:jorgeivanve...@gmail.com]
Sent: Tuesday, 18 May 2010 12:37 PM
To: Lorenzo Cattarino
Subject: Re: [R] applying quantile to a list using values of another
object as probs
Hi Lorenzo,
How about this?
lapply(1:length(mylist), function(i) quantile(mylist[[i]], probs =
B[i,]))
HTH,
Jorge
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