Displaying 20 results from an estimated 4000 matches similar to: "anyone can help me with Cholesky Decomposition"
2009 Mar 10
5
Cholesky Decomposition in R
Hi everyone:
I try to use r to do the Cholesky Decomposition,which is A=LDL',so far I
only found how to decomposite A in to LL' by using chol(A),the function
Cholesky(A) doesnt work,any one know other command to decomposte A in to
LDL'
My r code is:
library(Matrix)
A=matrix(c(1,1,1,1,5,5,1,5,14),nrow=3)
> chol(A)
[,1] [,2] [,3]
[1,] 1 1 1
[2,] 0 2 2
2013 Jun 19
0
Simple example of variables decorrelation using the Cholesky decomposition
Dear all,
I made a simple test of the Cholesky decomposition in the package 'Matrix',
by considering 2 variables 100% correlated.
http://blogs.sas.com/content/iml/2012/02/08/use-the-cholesky-transformation-to-correlate-and-uncorrelate-variables/
The full code is below and can be simply copy&paste in the R prompt.
After uncorrelation I still have a correlation of +-100%...
2005 Jan 21
1
Cholesky Decomposition
Can we do Cholesky Decompositon in R for any matrix
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2012 Nov 30
1
Choleski decomposition
m <- matrix(nrow=5, ncol=5)
m <- ifelse(row(m)==col(m), 1, 0.2)
c <- chol(m) # Choleski decomposition
u <- matrix(rnorm(2000*5), ncol=5)
uc <- u %*% c
cr <- pnorm(uc)
cr <- qbinom(cr,1,0.5)
cor(cr)
I expected that the cor(cr) to be 0.2 as i set in m, but the result is
around 0.1.
Why is that? Thanks
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2012 May 03
0
Modified Cholesky decomposition for sparse matrices
I am trying to estimate a covariance matrix from the Hessian of a posterior mode. However, this Hessian is indefinite (possibly because of numerical/roundoff issues), and thus, the Cholesky decomposition does not exist. So, I want to use a modified Cholesky algorithm to estimate a Cholesky of a pseudovariance that is reasonably close to the original matrix. I know that there are R packages that
2009 Apr 01
2
Need Advice on Matrix Not Positive Semi-Definite with cholesky decomposition
Dear fellow R Users:
I am doing a Cholesky decomposition on a correlation matrix and get error message
the matrix is not semi-definite.
Does anyone know:
1- a work around to this issue?
2- Is there any approach to try and figure out what vector might be co-linear with another in thr Matrix?
3- any way to perturb the data to work around this?
Thanks for any suggestions.
2009 Mar 11
0
LDL' Cholesky decomposition
The gchol function in library(kinship) does an LDL decomposition. An updated
version has just recently been posted on Rforge, in the bdsmatrix library which
is part of survival.
> temp <- matrix(c(1,1,1,1,5,8,1,8,14), 3)
> gt <- gchol(temp)
> as.matrix(gt) # L
[,1] [,2] [,3]
[1,] 1 0.00 0
[2,] 1 1.00 0
[3,] 1 1.75 1
> diag(gt) # D
[1]
2009 Nov 26
0
R: RE: R: Re: R: Re: chol( neg.def.matrix ) WAS: Re: Choleski and Choleski with pivoting of matrix fails
Thanks for your message!
Actually it works quite well for me too.
If I then take the trace of the final result below, I end up with a number
made up of both a real and an imaginary part. This does not probably mean much
if the trace of the matrix below givens me info about the degrees of freedom of
a model...
Simona
>----Messaggio originale----
>Da: RVaradhan at jhmi.edu
>Data:
2009 Nov 25
1
R: Re: R: Re: chol( neg.def.matrix ) WAS: Re: Choleski and Choleski with pivoting of matrix fails
Dear Peter,
thank you very much for your answer.
My problem is that I need to calculate the following quantity:
solve(chol(A)%*%Y)
Y is a 3*3 diagonal matrix and A is a 3*3 matrix. Unfortunately one
eigenvalue of A is negative. I can anyway take the square root of A but when I
multiply it by Y, the imaginary part of the square root of A is dropped, and I
do not get the right answer.
I tried
2009 Nov 23
1
R: Re: chol( neg.def.matrix ) WAS: Re: Choleski and Choleski with pivoting of matrix fails
It works! But Once I have the square root of this matrix, how do I convert it
to a real (not imaginary) matrix which has the same property? Is that
possible?
Best,
Simon
>----Messaggio originale----
>Da: p.dalgaard at biostat.ku.dk
>Data: 21-nov-2009 18.56
>A: "Charles C. Berry"<cberry at tajo.ucsd.edu>
>Cc: "simona.racioppi at
2001 Mar 13
1
.C-calls
Dear all,
(sorry I got the wrong button for subscribing a minute ago)
At the moment I'm writing on a package for random field
simulation that I'd like to make publically availabe
in near future.
To this end I've asked Martin Maechler to have a look
at my R-code. He was very surprised about how
I perform the ".C"-calls, and encouraged me to
make this request for comments.
2009 Mar 29
1
Data decomposition
Hi R users,
I have a time series variable that is only available at a monthly level for
1 years that I need to decompose to a weekly time series level - can
anyone recommend a R function that I can use to decompose this series?
eg. if month1 = 1200 I would to decompose so that the sum of the weeks for
month1 equals 1200, etc..
Many thanks in advance for any help.
--
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2012 Apr 02
0
STL decomposition of time series with multiple seasonalities
Hi all,
I have a time series that contains double seasonal components (48 and 336) and I would like to decompose the series into the following time series components (trend, seasonal component 1, seasonal component 2 and irregular component). As far as I know, the STL procedure for decomposing a series in R only allows one seasonal component, so I have tried decomposing the series twice. First,
2012 Aug 11
3
Problem when creating matrix of values based on covariance matrix
Hi,
I want to simulate a data set with similar covariance structure as my
observed data, and have calculated a covariance matrix (dimensions
8368*8368). So far I've tried two approaches to simulating data:
rmvnorm from the mvtnorm package, and by using the Cholesky
decomposition (http://www.cerebralmastication.com/2010/09/cholesk-post-on-correlated-random-normal-generation/).
The problem is
2009 Mar 27
3
about the Choleski factorization
Hi there,
Given a positive definite symmetric matrix, I can use chol(x) to obtain U where U is upper triangular
and x=U'U. For example,
x=matrix(c(5,1,2,1,3,1,2,1,4),3,3)
U=chol(x)
U
# [,1] [,2] [,3]
#[1,] 2.236068 0.4472136 0.8944272
#[2,] 0.000000 1.6733201 0.3585686
#[3,] 0.000000 0.0000000 1.7525492
t(U)%*%U # this is exactly x
Does anyone know how to obtain L such
2011 Dec 29
1
Cholesky update/downdate
Dear R-devel members,
I am looking for a fast Cholesky update/downdate. The matrix A being
symmetric positive definite (n, n) and factorized as
A = L %*% t(L), the goal is to factor the new matrix A +- C %*% t(C)
where C is (n, r). For instance, C is 1-column when adding/removing an
observation in a linear regression. Of special interest is the case
where A is sparse.
Looking at the
2007 Jul 02
2
how to use mle with a defined function
Hi all,
I am trying to use mle() to find a self-defined function. Here is my
function:
test <- function(a=0.1, b=0.1, c=0.001, e=0.2){
# omega is the known covariance matrix, Y is the response vector, X is the
explanatory matrix
odet = unlist(determinant(omega))[1]
# do cholesky decomposition
C = chol(omega)
# transform data
U = t(C)%*%Y
WW=t(C)%*%X
beta = lm(U~W)$coef
Z=Y-X%*%beta
2011 Nov 16
1
Theil decomposition
I came across the package 'ineq' that computes a variety of inequality measures (e.g. gini, theil etc). I want to compute the Theil index (racial segregation) and decompose the total into sub-components (by geog levels). I think the package doesn't report the decomposition (correct me if I'm wrong). Just wonder is that available elsewhere?
K.
2012 Jul 31
1
about changing order of Choleski factorization and inverse operation of a matrix
Dear All,
My question is simple but I need someone to help me out.
Suppose I have a positive definite matrix A.
The funtion chol() gives matrix L, such that A = L'L.
The inverse of A, say A.inv, is also positive definite and can be
factorized as A.inv = M'M.
Then
A = inverse of (A.inv) = inverse of (M'M) = (inverse of M) %*%
(inverse of M)'
= ((inverse of
2012 Feb 21
1
System is computationally singular error when using cholesky decompostion in MCMC
Hello Everyone
I have a MCMC loop to calculate a time varying hierarchical Bayesian
structure.
This requires me to use around 5-6 matrix inversions in the loop.
I use cholesky and chol2inv for the matrix decomposition.
Because of the data I am working with I am required to invert a 167 by 167
matrix twice in one iteration.
I need to run the iteration for 10000 times, but I get the error