[Numpy-discussion] inversion of large matrices
Dan Elliott
danelliottster@gmail....
Mon Aug 30 21:19:46 CDT 2010
Thanks for the reply.
David Warde-Farley <dwf <at> cs.toronto.edu> writes:
> On 2010-08-30, at 11:28 AM, Daniel Elliott wrote:
> > Large matrices (e.g. 10K x 10K)
>
> > Is there a function for performing the inverse or even the pdf of a
> > multinomial normal in these situations as well?
>
> There's a function for the inverse, but you almost never want to use it,
especially if your goal is the
> multivariate normal density. A basic explanation of why is available here:
> http://www.johndcook.com/blog/2010/01/19/dont-invert-that-matrix/
>
> In the case of the multivariate normal density the covariance is assumed to be
positive definite, and thus a
> Cholesky decomposition is appropriate. scipy.linalg.solve() (NOT
numpy.linalg.solve()) with the
> sym_pos=True argument will do this for you.
You don't think this will choke on a large (e.g. 10K x 10K) covariance matrix?
Given what you know about how it computes the log determinant and how the
Cholesky decomposition, do you suppose I would be better off using eigen-
decomposition to do this since I will also get the determinant from the sum of
the logs of the eigenvalues?
> What do you mean by a "multinomial normal"? Do you mean multivariate normal?
Offhand I can't remember if it
> exists in scipy.stats, but I know there's code for it in PyMC.
Oops, I meant multivariate normal. I found code in the pymix library and so far
I like what I see there. I am sure it works well for most cases. However, with
the exception of one R library, I have never found a packaged implementation
that works on covariance matrices as large as what I am talking about above.
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