Sparse principal components matlab software

It extends the classic method of principal component analysis for the reduction of dimensionality of data by introducing sparsity structures to the input variables. Principal component analysis pca is a standard technique for dimensionality reduction and data analysis which finds the kdimensional subspace of maximal variance in the data. However the interpretation of the pca component is difficult as usually all components are nonzero. A particular disadvantage of ordinary pca is that the principal components are usually linear combinations of all input variables. The algorithm is written in matlab, and relies on fourier transforms, sparse matrices, and forcedirected graph visualization. The main results also include bounds on the errors of the. Craniofacial similarity analysis through sparse principal component analysis. However, it can be used in a twostage exploratory analysis. To compute multiple principal components, the deflation scheme described in 2 is used. Spassm is a matlab toolbox for performing sparse regression, classification and principal component analysis.

In matlab, you can construct a sparse matrix using scalar expansion. Development started in 2004 and the toolbox receives regular updates. Principal component analysis of raw data matlab pca. For code generation, you can only use scalar expansion for compiletime scalar inputs. We used a sparse principal components spca algorithm implemented in the spasm matlab toolbox 50 to find the sparse principal components spcs of the normalized data matrix. The matrix b is the sparse weight loadings matrix and a is an orthonormal matrix. Craniofacial similarity analysis through sparse principal. Click here for more information on how i create this art. This code is available in pure matlab and python, is much faster, scales better and is easier to use. This archive contains a matlab implementation of sparse pca using the inverse power method for nonlinear eigenproblems nipm, introduced in the paper 1. This is a sparse principal component analysis spca toolbox which performs 8 formulations of the spca algorithm introduced by richtarik et. Each column of coeff contains coefficients for one principal component, and the columns are in descending order of component variance. The toolbox has been developed at the department of informatics at the technical university of denmark. A matlab toolbox for sparse statistical modeling journal of.

Principal component analysis pca is a standard technique for. This archive contains a matlab implementation of sparse pca using the. The code for sparse pca is published as free software under the terms of the gnu gpl v3. While the semidefinite program does not scale beyond n300. Sparse principal component analysis principal component analysis is a powerful tool for compacting a data set and for recovering latent structures in data, but solutions are di cult to interpret as they involve all the original predictor variables. Variablesize arrays that are scalar at run time are not expanded. The suitesparse logo at the top of this page was created via a mathematical algorithm that translates an entire piece of music into a single piece of artwork. Sparse principal component analysis as a nonlinear eigenproblem tbuehler sparsepca. Least angle regression, lasso, elastic net, sparse principal component analysis, sparse. Specifically, the interface of the spca function is. Sparse principal component analysis approximates the behavior of regular principal component analysis. Then, the principal components z are then formed as. Sparse pca machine learning group saarland university. Sparse and functional principal components analysis deepai.