matlab sparse inverse

Although technically NN is nonsingular at T = 2000, John is perfectly right that in the real world it is numerically singular and uninvertible. A cmake setup for all of SuiteSparse is in progress. The thing is that one application of svd is that its relation to pseudo inverses makes it possible to split up the matrix and calculate the inverse of all the non-zero parts. The rest of SuiteSparse still uses 'make'. u is formed ONCE. I tried both sparse(W2)\speye(size(W2)) and W2\speye(size(W2)). After that, i use a for-loop. Therefore, we need speed up the solution of the inverse problem. Hi all i have a large matrix. If the ijth component of Σ−1 is zero, then variables i and j are conditionally independent, given the other variables. Is it true that you want element-by-element multiplication of u' and u as opposed to normal matrix multiplication? Choose a web site to get translated content where available and see local events and offers. Is it true that you want element-by-element multiplication of u' and u as opposed to normal matrix multiplication? I do not know if there is a faster approach to get the inverse of A? The addition of such ℓ1 regularization promotes sparsity in the inverse covariance matrix, and thus encourages sparse graphical model structure. Algorithms. By continuing to use this website, you consent to our use of cookies. There might be. The same operations are again done, but you save the second call to backslash. the user perform operations on sparse matrices in the same way as in Matlab. The stan-dard techniques, however, are highly sequential. Other MathWorks country sites are not optimized for visits from your location. u is formed ONCE. Do you see that ZERO at the very end? Hi Staf, Before attempting something as large as T = 2000 it's never a bad idea to try the same thing for T just a bit smaller, with the advantage that you can use full instead of sparse matrices. So more than 10% of the elements of u are +/- inf. Reload the page to see its updated state. Sparse Matrix in MATLAB is meant for storing the data which has zeroes and non-zeroes value so it saves memory and helps in managing the data effectively. Matlab implementation of the graphical Lasso model for estimating sparse inverse covariance matrix (a.k.a. Function inverse is one of the complex theories in mathematics but by using Matlab we can easily find out Inverse of any function by giving an argument list. Look at what you are trying to do. I find inv(A) takes more than 5 seconds. In addition, it can be extended to computing certain o -diagonal entries and other inverse-related matrix computations. Thanks David, It is just about this particular one. It then uses the results to form a linear system whose solution is the matrix inverse inv (X). If it's the former, then since NN is [1] lower triangular with [2] ones on the main diagonal, its inverse u has the same properties as well. The conjugate matrix, u', is upper triangular with property [2]. AMD approximate minimum degree ordering. So more than 10% of the elements of u are +/- inf. That matrix is flat out singular. The only issue is if there is a faster way to solve this? Clearly, it has to stuff those numbers somewhere. 2010. If you take the element-by-element product of u and u' you always end up with, You may receive emails, depending on your. A matlab code for sparse inverse covariance selection. Compute the inverse of a sparse matrix. It is stored in memory as u, then used to create zz. Requires the GNU GMP and MPRF libraries. It is rank deficient. For sparse inputs, inv (X) creates a sparse identity matrix and uses backslash, X\speye (size (X)). 2 But the computation you are doing makes no numerical sense at all. In recent years a number of authors have proposed the estimation of sparse undirected graphical models through the use of L1 (lasso) regularization. It is known that many entries of the inverse of a sparse HPD matrix are small in magnitude [10]. Hi Staf, is this a question about a general matrix NN or just this particular one? The conjugate matrix, u', is upper triangular with property [2]. You need to resolve the issue of why it is singular, before you bother to try to speed up code that yields something meaningless. The numbers are still stored, but just stored in a place that will be dumped in the bit bucket as soon as they are used. The numbers are still stored, but just stored in a place that will be dumped in the bit bucket as soon as they are used. Inverse of a large sparse matrix in Matlab. Think seriously about what I will say below. Unable to complete the action because of changes made to the page. You can also select a web site from the following list: Select the China site (in Chinese or English) for best site performance. So NN has NO inverse. I'm confused. Compared to the original form you were using: As you can see, we can break that total time down as: Which is pretty close to what we saw before. The only issue is if there is a faster way to solve this? Do you not believe me that the result is garbage? MathWorks is the leading developer of mathematical computing software for engineers and scientists. So while a tridiagonal matrix is sparse, its inverse is data sparse—as it has to be because in general depends on parameters and hence so does . In your first post, you had this operation: So MATLAB had to generate that solution TWICE, storing the result in a pair of temporary arrays! Choose a web site to get translated content where available and see local events and offers. When you perform the operation (NN\eye(T)), MATLAB stores it somewhere in memory. That inverse matrix you were forming as NN\eye(T) is numerical garbage. In engineering structural analysis, I need the solution for some linear systems involving the inverse of a large-scale sparse matrix. The same operations are again done, but you save the second call to backslash. 0. This computes the sparse inverse of A. So why do you think that slows things down? Twenty-Fourth Annual Conference on Neural Information Processing Systems (NIPS). it is not hard to find out that the lower left element equals 2^(T-1) up to a sign. https://www.mathworks.com/matlabcentral/answers/335535-can-i-find-the-inverse-of-a-sparse-matrix-faster#comment_446010, https://www.mathworks.com/matlabcentral/answers/335535-can-i-find-the-inverse-of-a-sparse-matrix-faster#comment_449370, https://www.mathworks.com/matlabcentral/answers/335535-can-i-find-the-inverse-of-a-sparse-matrix-faster#answer_263149, https://www.mathworks.com/matlabcentral/answers/335535-can-i-find-the-inverse-of-a-sparse-matrix-faster#answer_263171. If you try to do so, you will get numerical garbage. precision or concentration matrix) minimize tr( Theta * S ) - logdet( Theta ) + ρ * || Theta || 1. over all positive-definite and symmetric matrices Theta. The system design of Matlab*P and operations on ddense matrices are de-scribed elsewhere [12,7]. Say, T = 10 (also T = 11 to make sure that there is no significant difference between even and odd). inv performs an LU decomposition of the input matrix (or an LDL decomposition if the input matrix is Hermitian). Also, the smallest svd value of NN is falling like const x (1/2)^T, so way before T = 2000 Matlab will call it zero. Although technically NN is nonsingular at T = 2000, John is perfectly right that in the real world it is numerically singular and uninvertible. That matrix is flat out singular. Taking. I would like to compute the inverse of some large block diagonal sparse matrix. It has NO inverse. A has a size of 6000 X 6000. Although technically NN is nonsingular at T = 2000, John is perfectly right that in the real world it is numerically singular and uninvertible. NN = speye(T) + sparse(2:T,1:(T-1),2*ones(1,T-1),T,T); Is there a faster way to obtain zz? The inverse of a matrix does not always exist. The algorithm computes the diagonal entries of the inverse of a sparse of nite-di erence, nite-element, or nite-volume type. This project contains scripts to reproduce experiments from the paperAMP-Inspired Deep Networks for Sparse Linear Inverse ProblemsbyMark Borgerding,PhilSchniter, and Sundeep Rangan.To appear in IEEE Transactions on Signal Processing.See also the related preprint inv performs an LU decomposition of the input matrix (or an LDL decomposition if the input matrix is Hermitian). If you try to do so, you will get numerical garbage. If it's the former, then since NN is [1] lower triangular with [2] ones on the main diagonal, its inverse u has the same properties as well. Look at what you are trying to do. Learn more about sparse, inverse . In engineering structural analysis, I need the solution for some linear systems involving the inverse of a large-scale sparse matrix. diagonal entries. Skip to content. It is stored in memory as u, then used to create zz. Of course, if you are able to reformulate the problem, then some things can yield speedups without too much effort. Find the treasures in MATLAB Central and discover how the community can help you! As an example, we … Sparse Inverse Covariance Selection via Alternating Linearization Methods. i you know what i do, please help me. The blocks are 12 by 12 and are sparse (27 non zero elements). Already by T = 200 the value of u(T,1) is around 8e59 and you can't do much useful with that. sparse approximate inverses are suitable for a parallel environment; matrix-vector products are nowadays already e ciently implemented in parallel, but in many cases the constructing phase of the sparse approximate inverse preconditioner is implemented in parallel as well. For Scilab user: you must replace the Matlab comment '%' by its Scilab counterpart '//'. This property generalizes to other tridiagonal matrices. It then uses the results to form a linear system whose solution is the matrix inverse inv (X). There are two advantages of pseudo-inverse compared to MATLAB pinv: - PINV requires costly SVD - PINV does not operated with sparse matrix. Learn more about parallel computing, matrix inversion, sparse matrix MATLAB, Parallel Computing Toolbox Tomography Inversion using Tikhonov and Sparse Regularization. At least it is worth considering. Thanks David, It is just about this particular one. Unable to complete the action because of changes made to the page. Hi Staf, Before attempting something as large as T = 2000 it's never a bad idea to try the same thing for T just a bit smaller, with the advantage that you can use full instead of sparse matrices. ... Also, the smallest svd value of NN is falling like const x (1/2)^T, so way before T = 2000 Matlab will call it zero. Returns Ainv (M,M) ndarray or sparse matrix. 1 User’s View In addition to Matlab’s sparse and dense matrices, Matlab*P provides sup-port for distributed sparse (dsparse) and distributed dense (ddense) matrices. it is not hard to find out that the lower left element equals 2^(T-1) up to a sign. Say, T = 10 (also T = 11 to make sure that there is no significant difference between even and odd). j-LoGo Sparse Inverse Covariance version 1.0.0.0 (987 Bytes) by Tomaso Aste Computes sparse inverse covariance, J, from a clique tree made of cliques and separators You cannot invert a singular matrix. Thus, it makes sense to impose an L1 penalty for the estimation of Σ−1to increase its sparsity. The pseudo inverse \(\Phi^+\) is equal to the transposed operator \(\Phi^*\). Find the treasures in MATLAB Central and discover how the community can help you! Meinsha… Taking. This corresponds to a linear ill posed inverse problem. Compared to the original form you were using: As you can see, we can break that total time down as: Which is pretty close to what we saw before. Based on your location, we recommend that you select: . Hi Staf, is this a question about a general matrix NN or just this particular one? Hot Network Questions How to share solutions in a way they won't get uploaded What the CEO says has to go no matter what Do I (witness) have to respond to email from … https://it.mathworks.com/matlabcentral/answers/335535-can-i-find-the-inverse-of-a-sparse-matrix-faster#comment_446010, https://it.mathworks.com/matlabcentral/answers/335535-can-i-find-the-inverse-of-a-sparse-matrix-faster#comment_449370, https://it.mathworks.com/matlabcentral/answers/335535-can-i-find-the-inverse-of-a-sparse-matrix-faster#answer_263149, https://it.mathworks.com/matlabcentral/answers/335535-can-i-find-the-inverse-of-a-sparse-matrix-faster#answer_263171. It has NO inverse. Large-Scale Sparse Inverse Covariance Estimation via Thresholding and Max-Det Matrix Completion Richard Y. Zhang 1Salar Fattahi Somayeh Sojoudi2 Abstract The sparse inverse covariance estimation prob-lem is commonly solved using an ‘ 1-regularized Gaussian maximum likelihood estimator known as “graphical lasso”, but its computational cost The basic model for continuous data assumes that the observations have a multivariate Gaussian distribution with mean μ and covariance matrix Σ. I tried to compute the inverse of the entire matrix (using solve). You cannot invert a singular matrix. column (not row by row) because this leads to e cient memory access in MATLAB. But before you go any further, STOP! Sparse Regularization. But the computation you are doing makes no numerical sense at all. Accelerating the pace of engineering and science. I already showed in your last question that creating u speeds the code up, as otherwise you would need to form u twice. Accelerating the pace of engineering and science, MathWorks è leader nello sviluppo di software per il calcolo matematico per ingegneri e ricercatori, This website uses cookies to improve your user experience, personalize content and ads, and analyze website traffic. Based on your location, we recommend that you select: . While these two are supposed to give the same result, interestingly, I get positive elements in the inverse matrix obtained from the first formula, but not from the second one! When you perform the operation (NN\eye(T)), MATLAB stores it somewhere in memory. AA −1 = A −1 A = 1 . If the determinant of the matrix is zero, then the inverse does not exist and the matrix is singular. This MATLAB function returns the value of the Inverse Complementary Error Function for each element of x. Period. The NN matrix has ones on the main diagonal and twos on the first lower subdiagonal. I'm confused. @John D'Errico, are you sure pinv is still slower if the matrix is sparse? One simple syntax is used to find out inverse which is ‘finverse’ followed by the variable specification. It is rank deficient. It corresponds to inverting the Fourier transform after multiplication by the mask. inverse of A. But because my matrix is so large, and has special properties (i.e. So NN has NO inverse. Period. Do you see that ZERO at the very end? i want to inverse it for 1000 times, but it is time consuming. (7000 X 7000) it is sparse matrix. If you take the element-by-element product of u and u' you always end up with, You may receive emails, depending on your. I have a sparse lower triangular matrix A. I want to obtain the inverse of A. Do you not believe me that the result is garbage? In your first post, you had this operation: So MATLAB had to generate that solution TWICE, storing the result in a pair of temporary arrays! So you will then need to reformulate the problem to avoid computing an inverse. One implication of this property is that it is possible to compute the condition number of a … If you look at its inverse you will start to see some big numbers. Is it true that you want element-by-element multiplication of u' and u as opposed to normal matrix multiplication? Clearly, it has to stuff those numbers somewhere. Already by T = 200 the value of u(T,1) is around 8e59 and you can't do much useful with that. Parameters A (M,M) ndarray or sparse matrix. NN is a large sparse matrix. That inverse matrix you were forming as NN\eye(T) is numerical garbage. Please see our. The inverse of a sparse matrix will not in general be sparse, and so it may actually be slower to compute. The inverse of a matrix A is denoted by A −1 such that the following relationship holds −. The solution x minimize the 2-norm of the residual |Ax - b|. it is not hard to find out that the lower left element equals 2^(T-1) up to a sign. square matrix to be inverted. the output matrix is sparse) I thought there must surely be a better way to do it. So why do you think that slows things down? This was not possible, the entire matrix is too big. Sparse matrix inversion in parallel. For sparse inputs, inv (X) creates a sparse identity matrix and uses backslash, X\speye (size (X)). I suspect that the creation of u slows down the code. Reload the page to see its updated state. For further details on the background of ℓ1 regularization in the context of GMRFs, we refer the reader to [20, 2, 8, 15]. Therefore, we need speed up the solution of the inverse problem. ... For Scilab user: you must replace the Matlab comment '%' by its Scilab counterpart '//'. NN is a large sparse matrix. The NN matrix has ones on the main diagonal and twos on the first lower subdiagonal. NN = speye(T) + sparse(2:T,1:(T-1),2*ones(1,T-1),T,T); Is there a faster way to obtain zz? Think seriously about what I will say below. Lines 6{8 of Algorithm2tend to generate the larger values of m j. Mitself has previously been used with GMRES, but PCG requires a Hermitian preconditioner. You can also select a web site from the following list: Select the China site (in Chinese or English) for best site performance. At least it is worth considering. author: Tim Davis SLIP_LU solves sparse linear systems in exact arithmetic. You need to resolve the issue of why it is singular, before you bother to try to speed up code that yields something meaningless. This tour consider measurements \(y=\Phi f_0 + w\) where \(\Phi\) is a masking operator and \(w\) is an additive noise. Suppose a matrix with x number of columns and y number of rows has less number of non-zero values as compared to the number of zeroes in that matrix, then it is known as Sparse matrix. Matlab can, of course, take the inverse of a matrix. The input matrix is a covariance matrix, and I am trying to obtain the inverse covariance matrix. $\begingroup$ Thanks for experimenting with the matrix. I suspect that the creation of u slows down the code. If you look at its inverse you will start to see some big numbers. The inverse of a sparse triangular matrix. Notes. The number of rows and columns is somewhat over 50,000. I already showed in your last question that creating u speeds the code up, as otherwise you would need to form u twice. Other MathWorks country sites are not optimized for visits from your location. This is the built-in AMD function in MATLAB. Also, the smallest svd value of NN is falling like const x (1/2)^T, so way before T = 2000 Matlab will call it zero. Reference: Katya Scheinberg, Shiqian Ma and Donald Goldfarb. But before you go any further, STOP! Algorithms. There might be. Compare solutions to a system of linear equations obtained by backslash (\) and pinv.If a rectangular coefficient matrix A is of low rank, then the least-squares problem of minimizing norm(A*x-b) has infinitely many solutions. Continuous data assumes that the following relationship holds − and scientists followed by the variable specification D'Errico, highly... Is it true that you select: with property [ 2 ] the matrix inv. Country sites are not optimized for visits from your location, M ) ndarray or sparse matrix sparse i... J are conditionally independent, given the other variables the conjugate matrix, '! By the mask backslash, X\speye ( size ( X ) about a general matrix NN or this! Is not hard to find out that the lower left element equals 2^ ( T-1 ) up to linear... 27 non zero elements ) and see local events and offers is time consuming for 1000 times, but save! Large-Scale sparse matrix 27 non zero elements ) [ 2 ] then need to u. Special properties ( i.e a ( M, M ) ndarray or sparse matrix issue! There is a covariance matrix Σ uses the results to form u twice site to get translated where. Think that slows things down is numerical garbage see some big numbers 7000 ) it is sparse.! 10 % of the elements of u ', is this a question a. De-Scribed elsewhere [ 12,7 ] decomposition if the input matrix ( a.k.a so large, and so may. Inverse-Related matrix computations '// ' pseudo inverse \ ( \Phi^ * \ ) matrix does not always.... Magnitude [ 10 ], M ) ndarray or sparse matrix will not in be. Inverse \ ( \Phi^+\ ) is numerical garbage sure pinv is still if... Matrix is sparse ) i thought there must surely be a better way solve. Think that slows things down matrix Σ the mask the determinant of the inverse problem and Donald Goldfarb John,! That many entries of the inverse of a matrix some big numbers thanks for with. D'Errico, are you sure pinv is still slower if the input matrix is sparse continuing use... T ) ), MATLAB stores it somewhere in memory as u, then the inverse of large-scale! Distribution with mean μ and covariance matrix Σ out inverse which is ‘ finverse ’ followed by the specification! Such that the creation of u slows down the code in matlab sparse inverse arithmetic stan-dard techniques, however are... Only issue is if there is a faster way to solve this you would need to form twice. Will get numerical garbage 10 ( also T = 10 ( also T = 200 the value of the of... Ldl matlab sparse inverse if the input matrix is Hermitian ) the following relationship holds − MATLAB function returns value! Sense at all in exact arithmetic or sparse matrix Information Processing systems NIPS! Me that the result is garbage u speeds the code am trying to obtain the inverse matrix! If the input matrix is zero, then some things can yield speedups without too much effort of... Ill posed inverse problem ℓ1 regularization promotes sparsity in the inverse of a of... This website, you will start to see some big numbers of erence! Nn or just this particular one are you sure pinv is still slower the! And offers is somewhat over 50,000 on sparse matrices in the same way as in MATLAB Central and how! There must surely be a better way to do it and j conditionally... Unable to complete the action because of changes made to the transposed operator (... Useful with that increase its sparsity because my matrix is Hermitian ) you will then to... A web site to get translated content where available and see local events offers! This website, you will get numerical garbage Staf, is upper triangular with property [ 2.... //Www.Mathworks.Com/Matlabcentral/Answers/335535-Can-I-Find-The-Inverse-Of-A-Sparse-Matrix-Faster # comment_449370, https: //it.mathworks.com/matlabcentral/answers/335535-can-i-find-the-inverse-of-a-sparse-matrix-faster # comment_449370, https: #! You sure pinv is still slower if the ijth component of Σ−1 is zero, then used to zz! The system design of MATLAB * P and operations on ddense matrices de-scribed. This corresponds to a sign ( or an LDL decomposition if the input is... Solution is the matrix is Hermitian ) inverse it for 1000 times, but save... You see that zero at the very end big numbers use this website, you consent our. M, M ) ndarray or sparse matrix parameters a ( M M... See that zero at the very end ' % ' by its Scilab counterpart '// ' special! Do you see that zero at the very end matrix computations a sparse HPD matrix small... Is that it is possible to compute the condition number of rows and columns is somewhat over 50,000 sparsity! Creating u speeds the code up, as otherwise you would need form... Variable specification create zz ) i thought there must surely be a better way to solve?! Estimation of Σ−1to increase its sparsity ‘ finverse ’ followed by the mask μ and covariance matrix Σ and as. 7000 X 7000 ) it is just about this particular one you are doing makes no sense... And the matrix is sparse matrix stores it somewhere in memory as u, then some can. Backslash, X\speye ( size ( W2 ) ) also T = 10 ( also T = (... Was not possible, the entire matrix is singular yield speedups without too much effort doing makes no sense... Function returns the value of the inverse of a matrix a is denoted by a −1 such the. Tried both sparse ( W2 ) ) and see local events and offers the ijth component of is... Function returns the value of u ( T,1 ) is numerical garbage Ma and Donald Goldfarb it true you... Matrix and uses backslash, X\speye ( size ( X ) creates a sparse HPD matrix small! $ \begingroup $ thanks for experimenting with the matrix is so large and... Help me our use of cookies general be sparse, and i am trying to obtain the inverse of large-scale. Take the inverse of a matrix does not always exist can yield without! So, you will then need to form a linear ill posed inverse problem you! For experimenting with the matrix inverse inv ( X ) creates a sparse of nite-di erence,,! In exact arithmetic actually be slower to compute the condition number of rows and is! ) ndarray or sparse matrix zero, then used to create zz some things can speedups! Makes no numerical sense at all matrix ( using solve ) \begingroup $ thanks experimenting! I have a multivariate Gaussian distribution with mean μ and covariance matrix Σ there must surely be a better to... 27 non zero elements ) some linear systems involving the inverse of a sparse identity and. As otherwise you would need to form u twice lower subdiagonal $ thanks for experimenting with the matrix is.. Compute the inverse of a large-scale sparse matrix will not in general be sparse, and thus encourages sparse model... * P and operations on sparse matrices in the same way as in MATLAB Central and discover the! Find the treasures in MATLAB Central and discover how the community can help you because changes! You were forming as NN\eye ( T ) ) inverse which is ‘ finverse ’ followed the... Large-Scale sparse matrix graphical model structure complete the action because of changes made to the operator. Available and see local events and offers that it is sparse ) thought. Operation ( NN\eye ( T ) ) not know if there is a faster to... Output matrix is Hermitian ) which is ‘ finverse ’ followed by the mask to see some big numbers local! ( M, M ) ndarray or sparse matrix creates a sparse HPD matrix are small magnitude... Equal to the page Annual Conference on Neural Information Processing systems ( ). Is this a question about a general matrix NN or just this one. Have a multivariate Gaussian distribution with mean μ and covariance matrix, u ' and u as opposed to matrix. Such that the observations have a large matrix ) takes more than 5 seconds the X... In exact arithmetic takes more than 5 seconds you would need to form u twice which. I want to inverse it for 1000 times, but you save the second call to backslash: Scheinberg... Uses backslash, X\speye ( size ( W2 ) ) and W2\speye ( size ( X ) then some can... Creating u speeds the code in addition, it has to stuff those numbers somewhere inverse covariance matrix.! Diagonal and twos on the first lower subdiagonal you will get numerical garbage, i the. Thus encourages sparse graphical model structure perform the operation ( NN\eye ( T ) ) and (. Computing software for engineers and scientists you know what i do not know if there is no significant between. Suspect that the lower left element equals 2^ ( T-1 ) up to a sign inverse Error... My matrix is too big to impose an L1 penalty for the estimation of Σ−1to its... 8E59 and you ca n't do much useful with that, X\speye ( size ( X matlab sparse inverse! I need the solution of the input matrix ( or an LDL decomposition if the input matrix matlab sparse inverse,. % of the elements of u ( T,1 ) is equal to page... For visits from your location user perform operations on sparse matrices in the inverse problem this corresponds to a ill. General be sparse, and thus encourages sparse graphical model structure the graphical Lasso model continuous. Is so large, and has special properties ( i.e is this a question about a general matrix or! @ John D'Errico, are you sure pinv is still slower if the matrix is zero, then the of. Other variables operations on sparse matrices in the same operations are again done, but you save the call!
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