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  • Graph cut optimization

    Graph cut optimization

    Graph cut optimization is a combinatorial optimization method applicable to a family of functions of discrete variables, named after the concept of cut in the theory of flow networks. Thanks to the max-flow min-cut theorem, determining the minimum cut over a graph representing a flow network is equivalent to computing the maximum flow over the network. Given a pseudo-Boolean function f {\displaystyle f} , if it is possible to construct a flow network with positive weights such that each cut C {\displaystyle C} of the network can be mapped to an assignment of variables x {\displaystyle \mathbf {x} } to f {\displaystyle f} (and vice versa), and the cost of C {\displaystyle C} equals f ( x ) {\displaystyle f(\mathbf {x} )} (up to an additive constant) then it is possible to find the global optimum of f {\displaystyle f} in polynomial time by computing a minimum cut of the graph. The mapping between cuts and variable assignments is done by representing each variable with one node in the graph and, given a cut, each variable will have a value of 0 if the corresponding node belongs to the component connected to the source, or 1 if it belong to the component connected to the sink. Not all pseudo-Boolean functions can be represented by a flow network, and in the general case the global optimization problem is NP-hard. There exist sufficient conditions to characterise families of functions that can be optimised through graph cuts, such as submodular quadratic functions. Graph cut optimization can be extended to functions of discrete variables with a finite number of values, that can be approached with iterative algorithms with strong optimality properties, computing one graph cut at each iteration. Graph cut optimization is an important tool for inference over graphical models such as Markov random fields or conditional random fields, and it has applications in computer vision problems such as image segmentation, denoising, registration and stereo matching. == Representability == A pseudo-Boolean function f : { 0 , 1 } n → R {\displaystyle f:\{0,1\}^{n}\to \mathbb {R} } is said to be representable if there exists a graph G = ( V , E ) {\displaystyle G=(V,E)} with non-negative weights and with source and sink nodes s {\displaystyle s} and t {\displaystyle t} respectively, and there exists a set of nodes V 0 = { v 1 , … , v n } ⊂ V − { s , t } {\displaystyle V_{0}=\{v_{1},\dots ,v_{n}\}\subset V-\{s,t\}} such that, for each tuple of values ( x 1 , … , x n ) ∈ { 0 , 1 } n {\displaystyle (x_{1},\dots ,x_{n})\in \{0,1\}^{n}} assigned to the variables, f ( x 1 , … , x n ) {\displaystyle f(x_{1},\dots ,x_{n})} equals (up to a constant) the value of the flow determined by a minimum cut C = ( S , T ) {\displaystyle C=(S,T)} of the graph G {\displaystyle G} such that v i ∈ S {\displaystyle v_{i}\in S} if x i = 0 {\displaystyle x_{i}=0} and v i ∈ T {\displaystyle v_{i}\in T} if x i = 1 {\displaystyle x_{i}=1} . It is possible to classify pseudo-Boolean functions according to their order, determined by the maximum number of variables contributing to each single term. All first order functions, where each term depends upon at most one variable, are always representable. Quadratic functions f ( x ) = w 0 + ∑ i w i ( x i ) + ∑ i < j w i j ( x i , x j ) . {\displaystyle f(\mathbf {x} )=w_{0}+\sum _{i}w_{i}(x_{i})+\sum _{i 0 {\displaystyle p>0} then w i j k ( x i , x j , x k ) = w i j k ( 0 , 0 , 0 ) + p 1 ( x i − 1 ) + p 2 ( x j − 1 ) + p 3 ( x k − 1 ) + p 23 ( x j − 1 ) x k + p 31 x i ( x k − 1 ) + p 12 ( x i − 1 ) x j − p x i x j x k {\displaystyle w_{ijk}(x_{i},x_{j},x_{k})=w_{ijk}(0,0,0)+p_{1}(x_{i}-1)+p_{2}(x_{j}-1)+p_{3}(x_{k}-1)+p_{23}(x_{j}-1)x_{k}+p_{31}x_{i}(x_{k}-1)+p_{12}(x_{i}-1)x_{j}-px_{i}x_{j}x_{k}} with p 1 = w i j k ( 1 , 0 , 1 ) − w i j k ( 0 , 0 , 1 ) p 2 = w i j k ( 1 , 1 , 0 ) − w i j k ( 1 , 0 , 1 ) p 3 = w i j k ( 0 , 1 , 1 ) − w i j k ( 0 , 1 , 0 ) p 23 = w i j k ( 0 , 0 , 1 ) + w i j k ( 0 , 1 , 0 ) − w i j k ( 0 , 0 , 0 ) − w i j k ( 0 , 1 , 1 ) p 31 = w i j k ( 0 , 0 , 1 ) + w i j k ( 1 , 0 , 0 ) − w i j k ( 0 , 0 , 0 ) − w i j k ( 1 , 0 , 1 ) p 12 = w i j k ( 0 , 1 , 0 ) + w i j k ( 1 , 0 , 0 ) − w i j k ( 0 , 0 , 0 ) − w i j k ( 1 , 1 , 0 ) . {\displaystyle {\begin{aligned}p_{1}&=w_{ijk}(1,0,1)-w_{ijk}(0,0,1)\\p_{2}&=w_{ijk}(1,1,0)-w_{ijk}(1,0,1)\\p_{3}&=w_{ijk}(0,1,1)-w_{ijk}(0,1,0)\\p_{23}&=w_{ijk}(0,0,1)+w_{ijk}(0,1,0)-w_{ijk}(0,0,0)-w_{ijk}(0,1,1)\\p_{31}&=w_{ijk}(0,0,1)+w_{ijk}(1,0,0)-w_{ijk}(0,0,0)-w_{ijk}(1,0,1)\\p_{12}&=w_{ijk}(0,1,0)+w_{ijk}(1,0,0)-w_{ijk}(0,0,0)-w_{ijk}(1,1

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  • Sigmoid function

    Sigmoid function

    A sigmoid function is any mathematical function whose graph has a characteristic S-shaped or sigmoid curve. A common example of a sigmoid function is the logistic function. Other sigmoid functions are given in the Examples section. In some fields, most notably in the context of artificial neural networks, the term "sigmoid function" is used as a synonym for "logistic function". Special cases of sigmoid functions include the Gompertz curve (used in modeling systems that saturate at large values of x) and the ogee curve (used in the spillway of some dams). Sigmoid functions have domain of all real numbers, with return (response) value commonly monotonically increasing but could be decreasing. Sigmoid functions most often show a return value (y axis) in the range 0 to 1. Another commonly used range is from −1 to 1. There is also the Heaviside step function, which instantaneously transitions between 0 and 1. A wide variety of sigmoid functions including the logistic and hyperbolic tangent functions have been used as the activation function of artificial neurons. Sigmoid curves are also common in statistics as cumulative distribution functions (which go from 0 to 1), such as the integrals of the logistic density, the normal density, and Student's t probability density functions. The logistic sigmoid function is invertible, and its inverse is the logit function. == Theory == In mathematics, a unitary sigmoid function is a bounded sigmoid-type function normalized to the unit range, typically with lower and upper asymptotes at 0 and 1. The theory proposed by Grebenc distinguishes three kinds of unitary sigmoid functions according to their asymptotic behavior and the presence or absence of oscillation near the asymptotes. A general form of a unitary sigmoid function is y = A S ( f ( x ) ) + B , {\displaystyle y=A\,S(f(x))+B,} where S {\displaystyle S} is an increasing sigmoid function, f ( x ) {\displaystyle f(x)} is a transformation of the independent variable, and A {\displaystyle A} and B {\displaystyle B} are constants controlling scaling and translation. === Classification === ==== 1st kind ==== A unitary sigmoid function of the first kind is a bounded increasing function that approaches its lower and upper asymptotes monotonically, without oscillation. This class includes many of the standard sigmoid functions used in statistics, biomathematics, and engineering, such as the logistic function and related generalizations. ==== 2nd kind ==== A unitary sigmoid function of the second kind is a bounded increasing function that oscillates near the upper asymptote while preserving an overall sigmoid transition. ==== 3rd kind ==== A unitary sigmoid function of the third kind is a bounded increasing function that oscillates near both the lower and upper asymptotes. These functions retain the global shape of a sigmoid curve but exhibit oscillatory behavior in the vicinity of both limiting states. === Taxonomy === The tables below show the taxonomy of unitary sigmoid functions of all three kinds. Table 1. Taxonomy matrix with examples of sigmoid functions of the 1st kind Table 2. Taxonomy matrix with examples of sigmoid functions of the 2nd kind on the unbounded interval Table 3. Taxonomy matrix with examples of sigmoid functions of the 3rd kind === Construction methods === The same theory presents a list of 30 methods for constructing sigmoid functions.. These include algebraic transformations, integration and convolution methods, constructions from bell-shaped functions, solutions of ordinary and partial differential equations, recursive schemes, stochastic differential equations, feedback systems, and chaotic systems. M0: Construction method for sigmoid functions not evident or intuitive M1: Inverse of singularity functions M2: Sigmoid functions of embedded positive functions M3: Rising a sigmoid function to the power M4: Exponentiating a sigmoid function M5: Symmetric sigmoid functions derived from asymmetric ones M6: Sigmoid functions of the reciprocal independent variable M7: Embedding a sigmoid function into other function M8: Sum of sigmoid functions M9: Multiplication of sigmoid functions M10: Integral of the product of an increasing and a decreasing function M11: Derivation from lambda (bell-shaped) functions M12: Integration of lambda (bell-shaped) function M13: Integration of the sum of lambda (bell-shaped) functions M14: Integration of the product of two lambda (bell-shaped) functions M15: Integration of the difference of two shifted sigmoid functions M16: Integration of the product of two shifted sigmoid functions M17: Convolution of sigmoid functions M18: Integration of the product of lambda and sigmoid function M19: Solutions of ordinary differential equations M20: Solutions of partial differential equation (PDE) M21: Solutions of functional differential equation (FDE) M22: Sum of a sigmoid function and some derivatives M23: Combination of sigmoid functions, its derivative and integral M24: Filtering sigmoid functions M25: Special cases of Gauss hypergeometric functions M26: Feedback closed-loop systems M27: Recursive functions M28: Recursive time-delayed feed-forward loops M29: Solutions of stochastic differential equation M30: Chaotic sigmoid functions Consult reference for more details. == Definition == A sigmoid function is a bounded, differentiable, real function that is defined for all real input values and has a positive derivative at each point. == Properties == In general, a sigmoid function is monotonic, and has a first derivative which is bell shaped. Conversely, the integral of any continuous, non-negative, bell-shaped function (with one local maximum and no local minimum, unless degenerate) will be sigmoidal. Thus the cumulative distribution functions for many common probability distributions are sigmoidal. One such example is the error function, which is related to the cumulative distribution function of a normal distribution; another is the arctan function, which is related to the cumulative distribution function of a Cauchy distribution. A sigmoid function is constrained by a pair of horizontal asymptotes as x → ± ∞ {\displaystyle x\rightarrow \pm \infty } . A sigmoid function is convex for values less than a particular point, and it is concave for values greater than that point: in many of the examples here, that point is 0. == Examples == Logistic function f ( x ) = 1 1 + e − x {\displaystyle f(x)={\frac {1}{1+e^{-x}}}} Hyperbolic tangent (shifted and scaled version of the logistic function, above) f ( x ) = tanh ⁡ x = e x − e − x e x + e − x {\displaystyle f(x)=\tanh x={\frac {e^{x}-e^{-x}}{e^{x}+e^{-x}}}} Arctangent function f ( x ) = arctan ⁡ x {\displaystyle f(x)=\arctan x} Gudermannian function f ( x ) = gd ⁡ ( x ) = ∫ 0 x d t cosh ⁡ t = 2 arctan ⁡ ( tanh ⁡ ( x 2 ) ) {\displaystyle f(x)=\operatorname {gd} (x)=\int _{0}^{x}{\frac {dt}{\cosh t}}=2\arctan \left(\tanh \left({\frac {x}{2}}\right)\right)} Error function f ( x ) = erf ⁡ ( x ) = 2 π ∫ 0 x e − t 2 d t {\displaystyle f(x)=\operatorname {erf} (x)={\frac {2}{\sqrt {\pi }}}\int _{0}^{x}e^{-t^{2}}\,dt} Generalised logistic function f ( x ) = ( 1 + e − x ) − α , α > 0 {\displaystyle f(x)=\left(1+e^{-x}\right)^{-\alpha },\quad \alpha >0} Smoothstep function f ( x ) = { ( ∫ 0 1 ( 1 − u 2 ) N d u ) − 1 ∫ 0 x ( 1 − u 2 ) N d u , | x | ≤ 1 sgn ⁡ ( x ) | x | ≥ 1 N ∈ Z ≥ 1 {\displaystyle f(x)={\begin{cases}{\displaystyle \left(\int _{0}^{1}\left(1-u^{2}\right)^{N}du\right)^{-1}\int _{0}^{x}\left(1-u^{2}\right)^{N}\ du},&|x|\leq 1\\\\\operatorname {sgn}(x)&|x|\geq 1\\\end{cases}}\quad N\in \mathbb {Z} \geq 1} Some algebraic functions, for example f ( x ) = x 1 + x 2 {\displaystyle f(x)={\frac {x}{\sqrt {1+x^{2}}}}} and in a more general form f ( x ) = x ( 1 + | x | k ) 1 / k {\displaystyle f(x)={\frac {x}{\left(1+|x|^{k}\right)^{1/k}}}} Up to shifts and scaling, many sigmoids are special cases of f ( x ) = φ ( φ ( x , β ) , α ) , {\displaystyle f(x)=\varphi (\varphi (x,\beta ),\alpha ),} where φ ( x , λ ) = { ( 1 − λ x ) 1 / λ λ ≠ 0 e − x λ = 0 {\displaystyle \varphi (x,\lambda )={\begin{cases}(1-\lambda x)^{1/\lambda }&\lambda \neq 0\\e^{-x}&\lambda =0\\\end{cases}}} is the inverse of the negative Box–Cox transformation, and α < 1 {\displaystyle \alpha <1} and β < 1 {\displaystyle \beta <1} are shape parameters. Smooth transition function normalized to (−1,1): f ( x ) = { 2 1 + e − 2 m x 1 − x 2 − 1 , | x | < 1 sgn ⁡ ( x ) | x | ≥ 1 = { tanh ⁡ ( m x 1 − x 2 ) , | x | < 1 sgn ⁡ ( x ) | x | ≥ 1 {\displaystyle {\begin{aligned}f(x)&={\begin{cases}{\displaystyle {\frac {2}{1+e^{-2m{\frac {x}{1-x^{2}}}}}}-1},&|x|<1\\\\\operatorname {sgn}(x)&|x|\geq 1\\\end{cases}}\\&={\begin{cases}{\displaystyle \tanh \left(m{\frac {x}{1-x^{2}}}\right)},&|x|<1\\\\\operatorname {sgn}(x)&|x|\geq 1\\\end{cases}}\end{aligned}}} using the hyperbolic tangent mentioned above. Here, m {\displaystyle m} is a free parameter encoding the slope at x = 0 {\displaystyle x=0} , which must be great

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  • Non-negative matrix factorization

    Non-negative matrix factorization

    Non-negative matrix factorization (NMF or NNMF), also non-negative matrix approximation is a group of algorithms in multivariate analysis and linear algebra where a matrix V is factorized into (usually) two matrices W and H, with the property that all three matrices have no negative elements. This non-negativity makes the resulting matrices easier to inspect. Also, in applications such as processing of audio spectrograms or muscular activity, non-negativity is inherent to the data being considered. Since the problem is not exactly solvable in general, it is commonly approximated numerically. NMF finds applications in such fields as astronomy, computer vision, document clustering, missing data imputation, chemometrics, audio signal processing, recommender systems, and bioinformatics. == History == In chemometrics non-negative matrix factorization has a long history under the name "self modeling curve resolution". In this framework the vectors in the right matrix are continuous curves rather than discrete vectors. Also early work on non-negative matrix factorizations was performed by a Finnish group of researchers in the 1990s under the name positive matrix factorization. It became more widely known as non-negative matrix factorization after Lee and Seung investigated the properties of the algorithm and published some simple and useful algorithms for two types of factorizations. == Background == Let matrix V be the product of the matrices W and H, V = W H . {\displaystyle \mathbf {V} =\mathbf {W} \mathbf {H} \,.} Matrix multiplication can be implemented as computing the column vectors of V as linear combinations of the column vectors in W using coefficients supplied by columns of H. That is, each column of V can be computed as follows: v i = W h i , {\displaystyle \mathbf {v} _{i}=\mathbf {W} \mathbf {h} _{i}\,,} where vi is the i-th column vector of the product matrix V and hi is the i-th column vector of the matrix H. When multiplying matrices, the dimensions of the factor matrices may be significantly lower than those of the product matrix and it is this property that forms the basis of NMF. NMF generates factors with significantly reduced dimensions compared to the original matrix. For example, if V is an m × n matrix, W is an m × p matrix, and H is a p × n matrix then p can be significantly less than both m and n. Here is an example based on a text-mining application: Let the input matrix (the matrix to be factored) be V with 10000 rows and 500 columns where words are in rows and documents are in columns. That is, we have 500 documents indexed by 10000 words. It follows that a column vector v in V represents a document. Assume we ask the algorithm to find 10 features in order to generate a features matrix W with 10000 rows and 10 columns and a coefficients matrix H with 10 rows and 500 columns. The product of W and H is a matrix with 10000 rows and 500 columns, the same shape as the input matrix V and, if the factorization worked, it is a reasonable approximation to the input matrix V. From the treatment of matrix multiplication above it follows that each column in the product matrix WH is a linear combination of the 10 column vectors in the features matrix W with coefficients supplied by the coefficients matrix H. This last point is the basis of NMF because we can consider each original document in our example as being built from a small set of hidden features. NMF generates these features. It is useful to think of each feature (column vector) in the features matrix W as a document archetype comprising a set of words where each word's cell value defines the word's rank in the feature: The higher a word's cell value the higher the word's rank in the feature. A column in the coefficients matrix H represents an original document with a cell value defining the document's rank for a feature. We can now reconstruct a document (column vector) from our input matrix by a linear combination of our features (column vectors in W) where each feature is weighted by the feature's cell value from the document's column in H. == Clustering property == NMF has an inherent clustering property, i.e., it automatically clusters the columns of input data V = ( v 1 , … , v n ) {\displaystyle \mathbf {V} =(v_{1},\dots ,v_{n})} . More specifically, the approximation of V {\displaystyle \mathbf {V} } by V ≃ W H {\displaystyle \mathbf {V} \simeq \mathbf {W} \mathbf {H} } is achieved by finding W {\displaystyle W} and H {\displaystyle H} that minimize the error function (using the Frobenius norm) ‖ V − W H ‖ F , {\displaystyle \left\|V-WH\right\|_{F},} subject to W ≥ 0 , H ≥ 0. {\displaystyle W\geq 0,H\geq 0.} , If we furthermore impose an orthogonality constraint on H {\displaystyle \mathbf {H} } , i.e. H H T = I {\displaystyle \mathbf {H} \mathbf {H} ^{T}=I} , then the above minimization is mathematically equivalent to the minimization of K-means clustering. Furthermore, the computed H {\displaystyle H} gives the cluster membership, i.e., if H k j > H i j {\displaystyle \mathbf {H} _{kj}>\mathbf {H} _{ij}} for all i ≠ k, this suggests that the input data v j {\displaystyle v_{j}} belongs to k {\displaystyle k} -th cluster. The computed W {\displaystyle W} gives the cluster centroids, i.e., the k {\displaystyle k} -th column gives the cluster centroid of k {\displaystyle k} -th cluster. This centroid's representation can be significantly enhanced by convex NMF. When the orthogonality constraint H H T = I {\displaystyle \mathbf {H} \mathbf {H} ^{T}=I} is not explicitly imposed, the orthogonality holds to a large extent, and the clustering property holds too. When the error function to be used is Kullback–Leibler divergence, NMF is identical to the probabilistic latent semantic analysis (PLSA), a popular document clustering method. == Types == === Approximate non-negative matrix factorization === Usually the number of columns of W and the number of rows of H in NMF are selected so the product WH will become an approximation to V. The full decomposition of V then amounts to the two non-negative matrices W and H as well as a residual U, such that: V = WH + U. The elements of the residual matrix can either be negative or positive. When W and H are smaller than V they become easier to store and manipulate. Another reason for factorizing V into smaller matrices W and H, is that if one's goal is to approximately represent the elements of V by significantly less data, then one has to infer some latent structure in the data. === Convex non-negative matrix factorization === In standard NMF, matrix factor W ∈ R+m × k, i.e., W can be anything in that space. Convex NMF restricts the columns of W to convex combinations of the input data vectors ( v 1 , … , v n ) {\displaystyle (v_{1},\dots ,v_{n})} . This greatly improves the quality of data representation of W. Furthermore, the resulting matrix factor H becomes more sparse and orthogonal. === Nonnegative rank factorization === In case the nonnegative rank of V is equal to its actual rank, V = WH is called a nonnegative rank factorization (NRF). The problem of finding the NRF of V, if it exists, is known to be NP-hard. === Different cost functions and regularizations === There are different types of non-negative matrix factorizations. The different types arise from using different cost functions for measuring the divergence between V and WH and possibly by regularization of the W and/or H matrices. Two simple divergence functions studied by Lee and Seung are the squared error (or Frobenius norm) and an extension of the Kullback–Leibler divergence to positive matrices (the original Kullback–Leibler divergence is defined on probability distributions). Each divergence leads to a different NMF algorithm, usually minimizing the divergence using iterative update rules. The factorization problem in the squared error version of NMF may be stated as: Given a matrix V {\displaystyle \mathbf {V} } find nonnegative matrices W and H that minimize the function F ( W , H ) = ‖ V − W H ‖ F 2 {\displaystyle F(\mathbf {W} ,\mathbf {H} )=\left\|\mathbf {V} -\mathbf {WH} \right\|_{F}^{2}} Another type of NMF for images is based on the total variation norm. When L1 regularization (akin to Lasso) is added to NMF with the mean squared error cost function, the resulting problem may be called non-negative sparse coding due to the similarity to the sparse coding problem, although it may also still be referred to as NMF. === Online NMF === Many standard NMF algorithms analyze all the data together; i.e., the whole matrix is available from the start. This may be unsatisfactory in applications where there are too many data to fit into memory or where the data are provided in streaming fashion. One such use is for collaborative filtering in recommendation systems, where there may be many users and many items to recommend, and it would be inefficient to recalculate everything when one user or one item is added to the system. The cost function for o

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  • Semidefinite embedding

    Semidefinite embedding

    Maximum Variance Unfolding (MVU), also known as Semidefinite Embedding (SDE), is an algorithm in computer science that uses semidefinite programming to perform non-linear dimensionality reduction of high-dimensional vectorial input data. It is motivated by the observation that kernel Principal Component Analysis (kPCA) does not reduce the data dimensionality, as it leverages the Kernel trick to non-linearly map the original data into an inner-product space. == Algorithm == MVU creates a mapping from the high dimensional input vectors to some low dimensional Euclidean vector space in the following steps: A neighbourhood graph is created. Each input is connected with its k-nearest input vectors (according to Euclidean distance metric) and all k-nearest neighbors are connected with each other. If the data is sampled well enough, the resulting graph is a discrete approximation of the underlying manifold. The neighbourhood graph is "unfolded" with the help of semidefinite programming. Instead of learning the output vectors directly, the semidefinite programming aims to find an inner product matrix that maximizes the pairwise distances between any two inputs that are not connected in the neighbourhood graph while preserving the nearest neighbors distances. The low-dimensional embedding is finally obtained by application of multidimensional scaling on the learned inner product matrix. The steps of applying semidefinite programming followed by a linear dimensionality reduction step to recover a low-dimensional embedding into a Euclidean space were first proposed by Linial, London, and Rabinovich. == Optimization formulation == Let X {\displaystyle X\,\!} be the original input and Y {\displaystyle Y\,\!} be the embedding. If i , j {\displaystyle i,j\,\!} are two neighbors, then the local isometry constraint that needs to be satisfied is: | X i − X j | 2 = | Y i − Y j | 2 {\displaystyle |X_{i}-X_{j}|^{2}=|Y_{i}-Y_{j}|^{2}\,\!} Let G , K {\displaystyle G,K\,\!} be the Gram matrices of X {\displaystyle X\,\!} and Y {\displaystyle Y\,\!} (i.e.: G i j = X i ⋅ X j , K i j = Y i ⋅ Y j {\displaystyle G_{ij}=X_{i}\cdot X_{j},K_{ij}=Y_{i}\cdot Y_{j}\,\!} ). We can express the above constraint for every neighbor points i , j {\displaystyle i,j\,\!} in term of G , K {\displaystyle G,K\,\!} : G i i + G j j − G i j − G j i = K i i + K j j − K i j − K j i {\displaystyle G_{ii}+G_{jj}-G_{ij}-G_{ji}=K_{ii}+K_{jj}-K_{ij}-K_{ji}\,\!} In addition, we also want to constrain the embedding Y {\displaystyle Y\,\!} to center at the origin: 0 = | ∑ i Y i | 2 ⇔ ( ∑ i Y i ) ⋅ ( ∑ i Y i ) ⇔ ∑ i , j Y i ⋅ Y j ⇔ ∑ i , j K i j {\displaystyle 0=|\sum _{i}Y_{i}|^{2}\Leftrightarrow (\sum _{i}Y_{i})\cdot (\sum _{i}Y_{i})\Leftrightarrow \sum _{i,j}Y_{i}\cdot Y_{j}\Leftrightarrow \sum _{i,j}K_{ij}} As described above, except the distances of neighbor points are preserved, the algorithm aims to maximize the pairwise distance of every pair of points. The objective function to be maximized is: T ( Y ) = 1 2 N ∑ i , j | Y i − Y j | 2 {\displaystyle T(Y)={\dfrac {1}{2N}}\sum _{i,j}|Y_{i}-Y_{j}|^{2}} Intuitively, maximizing the function above is equivalent to pulling the points as far away from each other as possible and therefore "unfold" the manifold. The local isometry constraint Let τ = m a x { η i j | Y i − Y j | 2 } {\displaystyle \tau =max\{\eta _{ij}|Y_{i}-Y_{j}|^{2}\}\,\!} where η i j := { 1 if i is a neighbour of j 0 otherwise . {\displaystyle \eta _{ij}:={\begin{cases}1&{\mbox{if}}\ i{\mbox{ is a neighbour of }}j\\0&{\mbox{otherwise}}.\end{cases}}} prevents the objective function from diverging (going to infinity). Since the graph has N points, the distance between any two points | Y i − Y j | 2 ≤ N τ {\displaystyle |Y_{i}-Y_{j}|^{2}\leq N\tau \,\!} . We can then bound the objective function as follows: T ( Y ) = 1 2 N ∑ i , j | Y i − Y j | 2 ≤ 1 2 N ∑ i , j ( N τ ) 2 = N 3 τ 2 2 {\displaystyle T(Y)={\dfrac {1}{2N}}\sum _{i,j}|Y_{i}-Y_{j}|^{2}\leq {\dfrac {1}{2N}}\sum _{i,j}(N\tau )^{2}={\dfrac {N^{3}\tau ^{2}}{2}}\,\!} The objective function can be rewritten purely in the form of the Gram matrix: T ( Y ) = 1 2 N ∑ i , j | Y i − Y j | 2 = 1 2 N ∑ i , j ( Y i 2 + Y j 2 − Y i ⋅ Y j − Y j ⋅ Y i ) = 1 2 N ( ∑ i , j Y i 2 + ∑ i , j Y j 2 − ∑ i , j Y i ⋅ Y j − ∑ i , j Y j ⋅ Y i ) = 1 2 N ( ∑ i , j Y i 2 + ∑ i , j Y j 2 − 0 − 0 ) = 1 N ( ∑ i Y i 2 ) = 1 N ( T r ( K ) ) {\displaystyle {\begin{aligned}T(Y)&{}={\dfrac {1}{2N}}\sum _{i,j}|Y_{i}-Y_{j}|^{2}\\&{}={\dfrac {1}{2N}}\sum _{i,j}(Y_{i}^{2}+Y_{j}^{2}-Y_{i}\cdot Y_{j}-Y_{j}\cdot Y_{i})\\&{}={\dfrac {1}{2N}}(\sum _{i,j}Y_{i}^{2}+\sum _{i,j}Y_{j}^{2}-\sum _{i,j}Y_{i}\cdot Y_{j}-\sum _{i,j}Y_{j}\cdot Y_{i})\\&{}={\dfrac {1}{2N}}(\sum _{i,j}Y_{i}^{2}+\sum _{i,j}Y_{j}^{2}-0-0)\\&{}={\dfrac {1}{N}}(\sum _{i}Y_{i}^{2})={\dfrac {1}{N}}(Tr(K))\\\end{aligned}}\,\!} Finally, the optimization can be formulated as: Maximize T r ( K ) subject to K ⪰ 0 , ∑ i j K i j = 0 and G i i + G j j − G i j − G j i = K i i + K j j − K i j − K j i , ∀ i , j where η i j = 1 , {\displaystyle {\begin{aligned}&{\text{Maximize}}&&Tr(\mathbf {K} )\\&{\text{subject to}}&&\mathbf {K} \succeq 0,\sum _{ij}\mathbf {K} _{ij}=0\\&{\text{and}}&&G_{ii}+G_{jj}-G_{ij}-G_{ji}=K_{ii}+K_{jj}-K_{ij}-K_{ji},\forall i,j{\mbox{ where }}\eta _{ij}=1,\end{aligned}}} After the Gram matrix K {\displaystyle K\,\!} is learned by semidefinite programming, the output Y {\displaystyle Y\,\!} can be obtained via Cholesky decomposition. In particular, the Gram matrix can be written as K i j = ∑ α = 1 N ( λ α V α i V α j ) {\displaystyle K_{ij}=\sum _{\alpha =1}^{N}(\lambda _{\alpha }V_{\alpha i}V_{\alpha j})\,\!} where V α i {\displaystyle V_{\alpha i}\,\!} is the i-th element of eigenvector V α {\displaystyle V_{\alpha }\,\!} of the eigenvalue λ α {\displaystyle \lambda _{\alpha }\,\!} . It follows that the α {\displaystyle \alpha \,\!} -th element of the output Y i {\displaystyle Y_{i}\,\!} is λ α V α i {\displaystyle {\sqrt {\lambda _{\alpha }}}V_{\alpha i}\,\!} .

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  • Feng Office Community Edition

    Feng Office Community Edition

    Feng Office Community Edition (formerly OpenGoo) is an open-source collaboration platform developed and supported by Feng Office and the OpenGoo community. It is a fully featured online office suite with a similar set of features as other online office suites, like Google Workspace, Microsoft 365, Zimbra, LibreOffice Online and Zoho Office Suite. The application can be downloaded and installed on a server. Feng Office could also be categorized as collaborative software and as personal information manager software. == Features == Feng Office Community Edition main features include project management, document management, contact management, e-mail and time management. Text documents and presentations can be created and edited online. Files can be uploaded, organized and shared, independent of file formats. Organization of the information in Feng Office Community Edition is done using workspaces and tags. The application presents the information stored using different interfaces such as lists, dashboards and calendar views. == Licensing == Feng Office Community Edition is distributed under the GNU Affero General Public License, version 3 only. == Technology used == Feng Office uses PHP, JavaScript, AJAX (ExtJS) and MySQL technology. Several open source projects served as a basis for development. ActiveCollab's last open sourced release was used as the initial code base. It includes CKEditor for online document editing. == System requirements == The server could run on any operating system. The system needs the following packages: Apache HTTP Server 2.0+ PHP 5.0+ MySQL 4.1+ (InnoDB support recommended) On the client side, the user is only required to use a modern Web browser. == History == OpenGoo started as a degree project at the faculty of Engineering of the University of the Republic, Uruguay. The project was presented and championed by Software Engineer Conrado Viña. Software Engineers Marcos Saiz and Ignacio de Soto developed the first prototype as their thesis. Professors Eduardo Fernández and Tomas Laurenzo served as tutors. Conrado, Ignacio and Marcos founded the OpenGoo community and remain active members and core developers. The thesis was approved with the highest score. In 2008, Viña joined the Uruguayan software development company Moove It. Currently there is a second project for OpenGoo at the same university being developed by students Fernando Rodríguez, Ignacio Vázquez and Juan Pedro del Campo. Their project aims to build an open source Web-based spreadsheet. In December 2009 the OpenGoo name was changed to Feng Office Community Edition.

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  • Logic learning machine

    Logic learning machine

    Logic learning machine (LLM) is a machine learning method based on the generation of intelligible rules. LLM is an efficient implementation of the Switching Neural Network (SNN) paradigm, developed by Marco Muselli, Senior Researcher at the Italian National Research Council CNR-IEIIT in Genoa. LLM has been employed in many different sectors, including the field of medicine (orthopedic patient classification, DNA micro-array analysis and Clinical Decision Support Systems), financial services and supply chain management. == History == The Switching Neural Network approach was developed in the 1990s to overcome the drawbacks of the most commonly used machine learning methods. In particular, black box methods, such as multilayer perceptron and support vector machine, had good accuracy but could not provide deep insight into the studied phenomenon. On the other hand, decision trees were able to describe the phenomenon but often lacked accuracy. Switching Neural Networks made use of Boolean algebra to build sets of intelligible rules able to obtain very good performance. In 2014, an efficient version of Switching Neural Network was developed and implemented in the Rulex suite with the name Logic Learning Machine. Also, an LLM version devoted to regression problems was developed. == General == Like other machine learning methods, LLM uses data to build a model able to perform a good forecast about future behaviors. LLM starts from a table including a target variable (output) and some inputs and generates a set of rules that return the output value y {\displaystyle y} corresponding to a given configuration of inputs. A rule is written in the form: if premise then consequence where consequence contains the output value whereas premise includes one or more conditions on the inputs. According to the input type, conditions can have different forms: for categorical variables the input value must be in a given subset: x 1 ∈ { A , B , C , . . . } {\displaystyle x_{1}\in \{A,B,C,...\}} . for ordered variables the condition is written as an inequality or an interval: x 2 ≤ α {\displaystyle x_{2}\leq \alpha } or β ≤ x 3 ≤ γ {\displaystyle \beta \leq x_{3}\leq \gamma } A possible rule is therefore in the form if x 1 ∈ { A , B , C , . . . } {\displaystyle x_{1}\in \{A,B,C,...\}} AND x 2 ≤ α {\displaystyle x_{2}\leq \alpha } AND β ≤ x 3 ≤ γ {\displaystyle \beta \leq x_{3}\leq \gamma } then y = y ¯ {\displaystyle y={\bar {y}}} == Types == According to the output type, different versions of the Logic Learning Machine have been developed: Logic Learning Machine for classification, when the output is a categorical variable, which can assume values in a finite set Logic Learning Machine for regression, when the output is an integer or real number.

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  • Training, validation, and test data sets

    Training, validation, and test data sets

    In machine learning, a common task is the study and construction of algorithms that can learn from and make predictions on data. Such algorithms function by making data-driven predictions or decisions, through building a mathematical model from input data. These input data used to build the model are usually divided into multiple data sets. In particular, three data sets are commonly used in different stages of the creation of the model: training, validation, and testing sets. The model is initially fit on a training data set, which is a set of examples used to fit the parameters (e.g. weights of connections between neurons in artificial neural networks) of the model. The model (e.g. a naive Bayes classifier) is trained on the training data set using a supervised learning method, for example using optimization methods such as gradient descent or stochastic gradient descent. In practice, the training data set often consists of pairs of an input vector (or scalar) and the corresponding output vector (or scalar), where the answer key is commonly denoted as the target (or label). The current model is run with the training data set and produces a result, which is then compared with the target, for each input vector in the training data set. Based on the result of the comparison and the specific learning algorithm being used, the parameters of the model are adjusted. The model fitting can include both variable selection and parameter estimation. Successively, the fitted model is used to predict the responses for the observations in a second data set called the validation data set. The validation data set provides an unbiased evaluation of a model fit on the training data set while tuning the model's hyperparameters (e.g. the number of hidden units—layers and layer widths—in a neural network). Validation data sets can be used for regularization by early stopping (stopping training when the error on the validation data set increases, as this is a sign of over-fitting to the training data set). This simple procedure is complicated in practice by the fact that the validation data set's error may fluctuate during training, producing multiple local minima. This complication has led to the creation of many ad-hoc rules for deciding when over-fitting has truly begun. Finally, the test data set is a data set used to provide an unbiased evaluation of a model fit on the training data set. When the data in the test data set has never been used (for example in cross-validation), the test data set is called a holdout data set. The term "validation set" is sometimes used instead of "test set" in some literature (e.g., if the original data set was partitioned into only two subsets, the test set might be referred to as the validation set). Deciding the sizes and strategies for data set division in training, test and validation sets is very dependent on the problem and data available. == Training data set == A training data set is a data set of examples used during the learning process and is used to fit the parameters (e.g., weights) of, for example, a classifier. For classification tasks, a supervised learning algorithm looks at the training data set to determine, or learn, the optimal combinations of variables that will generate a good predictive model. The goal is to produce a trained (fitted) model that generalizes well to new, unknown data. The fitted model is evaluated using “new” examples from the held-out data sets (validation and test data sets) to estimate the model’s accuracy in classifying new data. To reduce the risk of issues such as over-fitting, the examples in the validation and test data sets should not be used to train the model. Most approaches that search through training data for empirical relationships tend to overfit the data, meaning that they can identify and exploit apparent relationships in the training data that do not hold in general. When a training set is continuously expanded with new data, then this is incremental learning. == Validation data set == A validation data set is a data set of examples used to tune the hyperparameters (i.e. the architecture) of a model. It is sometimes also called the development set or the "dev set". An example of a hyperparameter for artificial neural networks includes the number of hidden units in each layer. It, as well as the testing set (as mentioned below), should follow the same probability distribution as the training data set. In order to avoid overfitting, when any classification parameter needs to be adjusted, it is necessary to have a validation data set in addition to the training and test data sets. For example, if the most suitable classifier for the problem is sought, the training data set is used to train the different candidate classifiers, the validation data set is used to compare their performances and decide which one to take and, finally, the test data set is used to obtain the performance characteristics such as accuracy, sensitivity, specificity, F-measure, and so on. The validation data set functions as a hybrid: it is training data used for testing, but neither as part of the low-level training nor as part of the final testing. The basic process of using a validation data set for model selection (as part of training data set, validation data set, and test data set) is: Since our goal is to find the network having the best performance on new data, the simplest approach to the comparison of different networks is to evaluate the error function using data which is independent of that used for training. Various networks are trained by minimization of an appropriate error function defined with respect to a training data set. The performance of the networks is then compared by evaluating the error function using an independent validation set, and the network having the smallest error with respect to the validation set is selected. This approach is called the hold out method. Since this procedure can itself lead to some overfitting to the validation set, the performance of the selected network should be confirmed by measuring its performance on a third independent set of data called a test set. An application of this process is in early stopping, where the candidate models are successive iterations of the same network, and training stops when the error on the validation set grows, choosing the previous model (the one with minimum error). == Test data set == A test data set is a data set that is independent of the training data set, but that follows the same probability distribution as the training data set. A test set is therefore a set of examples used only to assess the performance (i.e. generalization) of a specified classifier on unseen data. To do this, the model is used to predict classifications of examples in the test set. Those predictions are compared to the examples' true classifications to assess the model's accuracy. If a model fit to the training and validation data set also fits the test data set well, minimal overfitting has taken place (see figure below). A better fitting of the training or validation data sets as opposed to the test data set usually points to overfitting. In the scenario where a data set has a low number of samples, it is usually partitioned into a training set and a validation data set, where the model is trained on the training set and refined using the validation set to improve accuracy, but this approach will lead to overfitting. The holdout method can also be employed, where the test set is used at the end, after training on the training set. Other techniques, such as cross-validation and bootstrapping, are used on small data sets. The bootstrap method generates numerous simulated data sets of the same size by randomly sampling with replacement from the original data, allowing the random data points to serve as test sets for evaluating model performance. Cross-validation splits the data set into multiple folds, with a single sub-fold used as test data; the model is trained on the remaining folds, and all folds are cross-validated (with results averaged and models consolidated) to estimate final model performance. Note that some sources advise against using a single split, as it can lead to overfitting as well as biased model performance estimates. For this reason, data sets are split into three partitions: training, validation and test data sets. The standard machine learning practice is to train on the training set and tune hyperparameters using the validation set, where the validation process selects the model with the lowest validation loss, which is then tested on the test data set (normally held out) to assess the final model. The holdout method for the test set reduces computation by avoiding using the test set after each epoch. The test data set should never be used for validating the training model or fine-tuning hyperparameters, as it provides an accurate and honest evaluation of the model's final performance on unseen dat

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  • Discrete diffusion model

    Discrete diffusion model

    In machine learning, discrete diffusion models are a class of diffusion models, which themselves are a class of latent variable generative models. Each discrete diffusion model consists of two major components: the forward jump diffusion process, and the reverse jump diffusion process. The goal of diffusion modeling is, given a given dataset and a forward process, to learn a model for the reverse process, such that the reverse process can generate new elements that are distributed similarly as the original dataset. A trained discrete diffusion model can be sampled in many ways, which trades off computational efficiency and sample quality. In general, higher quality data can be obtained, but at the price of higher computational cost. In standard diffusion modeling, the diffusion process takes place over a state space that is continuous space of R n {\displaystyle \mathbb {R} ^{n}} , but over a discrete set S {\displaystyle S} . A discrete set is simply a set where one cannot speak of "infinitesimally close" points. Points can be more or less separated from each other, but the separation is always a finite number. This in particular means the standard framework of continuous diffusion does not apply, since it uses gaussian noise, which is continuous. Nevertheless, an analogous theory can be produced. Discrete diffusion is usually used for language modeling. In practice, the state space S {\displaystyle S} is not only discrete, but finite, so this is what we will assume from now on. == Continuous time Markov process == In the case of continuous state space, during the forward discrete diffusion process, at each step t → t + d t {\displaystyle t\to t+dt} , we mix in an infinitesimal amount of gaussian noise d x t = − 1 2 β ( t ) x t d t + β ( t ) d W t {\displaystyle dx_{t}=-{\frac {1}{2}}\beta (t)x_{t}dt+{\sqrt {\beta (t)}}dW_{t}} . This changes the probability density function, by first a convolution with the density of a gaussian, followed by a scaling. In the case of discrete state space, the gaussian noise must be replaced by a noise that takes values over a finite set. For example, if the noise is the uniform distribution over S {\displaystyle S} , then the probability distribution at time t + d t {\displaystyle t+dt} satisfies q t + d t ( x ) = ( 1 − d t ) q t ( x ) + d t ( 1 | S | ∑ y ∈ S q t ( y ) ) {\displaystyle q_{t+dt}(x)=(1-dt)q_{t}(x)+dt\left({\frac {1}{|S|}}\sum _{y\in S}q_{t}(y)\right)} More succinctly, ∂ t q t ( x ) = − ( 1 − 1 | S | ) q t ( x ) + ∑ y ∈ S , y ≠ x 1 | S | q t ( y ) {\displaystyle \partial _{t}q_{t}(x)=-\left(1-{\frac {1}{|S|}}\right)q_{t}(x)+\sum _{y\in S,y\neq x}{\frac {1}{|S|}}q_{t}(y)} In general, we do not need to convolve with a uniformly distributed noise, but with an arbitrary noise process. That is, we use an arbitrary matrix Q t {\displaystyle Q_{t}} such that ∂ t q t ( y ) = ∑ x ∈ S Q t ( y , x ) q t ( x ) {\displaystyle \partial _{t}q_{t}(y)=\sum _{x\in S}Q_{t}(y,x)q_{t}(x)} where Q t {\displaystyle Q_{t}} is called the rate matrix. Any matrix may be used as a rate matrix if it has non-negative off-diagonals, and each column sums to 0: Q t ( y , x ) ≥ 0 ∀ y ≠ x , ∑ y ∈ S Q t ( y , x ) = 0 ∀ x {\displaystyle Q_{t}(y,x)\geq 0\quad \forall y\neq x,\quad \sum _{y\in S}Q_{t}(y,x)=0\quad \forall x} A continuous time Markov chain (CTMC) is defined by a continuous function Q {\displaystyle Q} that maps any time t ∈ [ 0 , T ) {\displaystyle t\in [0,T)} to a rate matrix Q t {\displaystyle Q_{t}} . Given the function Q {\displaystyle Q} , time-evolution under the CTMC is done as follows: Given state x t {\displaystyle x_{t}} at time t {\displaystyle t} , and given an infinitesimal d t {\displaystyle dt} , the state at t + d t {\displaystyle t+dt} is x t + d t {\displaystyle x_{t+dt}} , such that Pr ( x t + d t | x t ) = { 1 + Q t ( x t + d t , x t ) d t if x t + d t = x t Q t ( x t + d t , x t ) d t else {\displaystyle \Pr(x_{t+dt}|x_{t})={\begin{cases}1+Q_{t}(x_{t+dt},x_{t})dt&{\text{if }}x_{t+dt}=x_{t}\\Q_{t}(x_{t+dt},x_{t})dt&{\text{else}}\end{cases}}} This implies that the probability distribution function evolves according to ∂ t q t ( y ) = ∑ x ∈ S Q t ( y , x ) q t ( x ) {\displaystyle \partial _{t}q_{t}(y)=\sum _{x\in S}Q_{t}(y,x)q_{t}(x)} which is what we previously specified. === Backward process === Similarly to the case of continuous diffusion, in discrete diffusion, there exists a backward diffusion process Q ¯ t {\displaystyle {\bar {Q}}_{t}} : s ( x , t ) y := q t ( y ) q t ( x ) , Q ¯ t ( y , x ) := { s ( x , t ) y Q t ( x , y ) if y ≠ x − ∑ y : y ≠ x Q ¯ t ( y , x ) if y = x {\displaystyle s(x,t)_{y}:={\frac {q_{t}(y)}{q_{t}(x)}},\quad {\bar {Q}}_{t}(y,x):={\begin{cases}s(x,t)_{y}Q_{t}(x,y)&{\text{if }}y\neq x\\-\sum _{y:y\neq x}{\bar {Q}}_{t}(y,x)&{\text{if }}y=x\end{cases}}} where s ( x , t ) y {\displaystyle s(x,t)_{y}} should be interpreted as the discrete score or concrete score, since, abusing notation a bit, the score function is ∇ ln ⁡ ρ t ( x ) = 1 d x ( ρ t ( x + d x ) ρ t ( x ) − 1 ) {\displaystyle \nabla \ln \rho _{t}(x)={\frac {1}{dx}}\left({\frac {\rho _{t}(x+dx)}{\rho _{t}(x)}}-1\right)} . If we picture the distribution q t {\displaystyle q_{t}} as a bunch of point-masses, one per state x ∈ S {\displaystyle x\in S} , then the forward diffusion from time t {\displaystyle t} to t + d t {\displaystyle t+dt} is performed by removing Q t ( x , y ) q t ( y ) d t {\displaystyle Q_{t}(x,y)q_{t}(y)dt} from the mass at y {\displaystyle y} and moving it to the mass at x {\displaystyle x} , for each pair x ≠ y {\displaystyle x\neq y} . Thus, the process is reversed in detail by the CTMC defined by Q ¯ {\displaystyle {\bar {Q}}} , since Q ¯ t ( y , x ) q t ( x ) = Q t ( x , y ) q t ( y ) {\displaystyle {\bar {Q}}_{t}(y,x)q_{t}(x)=Q_{t}(x,y)q_{t}(y)} . Given Q ¯ t {\displaystyle {\bar {Q}}_{t}} , if we have a way to sample from q t {\displaystyle q_{t}} , then we can sample from q t − d t {\displaystyle q_{t-dt}} by first sampling x t ∼ q t {\displaystyle x_{t}\sim q_{t}} , then sampling x t − d t {\displaystyle x_{t-dt}} according to Pr ( x t − d t | x t ) = { 1 + Q ¯ t ( x t − d t , x t ) d t if x t − d t = x t Q ¯ t ( x t − d t , x t ) d t else {\displaystyle \Pr(x_{t-dt}|x_{t})={\begin{cases}1+{\bar {Q}}_{t}(x_{t-dt},x_{t})dt&{\text{if }}x_{t-dt}=x_{t}\\{\bar {Q}}_{t}(x_{t-dt},x_{t})dt&{\text{else}}\end{cases}}} === Overall plan of score-matching discrete diffusion modeling === Similar to score-matching continuous diffusion, score-matching discrete diffusion is a method to sample an initial distribution. If we have a certain function s θ {\displaystyle s_{\theta }} that approximates the true score function s θ ( x , t ) y ≈ s ( x , t ) y {\displaystyle s_{\theta }(x,t)_{y}\approx s(x,t)_{y}} , then it allows a corresponding Q ¯ θ {\displaystyle {\bar {Q}}^{\theta }} to be defined in the same way. If we also have a base distribution q base {\displaystyle q_{\text{base}}} such that it is easy to sample from, and approximately equal to the true terminal distribution q base ≈ q T {\displaystyle q_{\text{base}}\approx q_{T}} , then we can perform the backward CTMC with Q ¯ θ {\displaystyle {\bar {Q}}^{\theta }} and q T θ := q terminal {\displaystyle q_{T}^{\theta }:=q_{\text{terminal}}} . When both approximations are good, the backward CTMC would give q 0 θ ≈ q 0 {\displaystyle q_{0}^{\theta }\approx q_{0}} . This is the idea of score-matching discrete diffusion modeling. If q data {\displaystyle q_{\text{data}}} is sharp, in the sense that for some x , x ′ {\displaystyle x,x'} , we have q data ( x ) ≫ q data ( x ′ ) {\displaystyle q_{\text{data}}(x)\gg q_{\text{data}}(x')} , then the score function would diverge as 1 / t {\displaystyle 1/t} at the t → 0 {\displaystyle t\to 0} limit. To avoid this in practice, it is common to use early stopping, which is to stop the backward process at some time δ > 0 {\displaystyle \delta >0} , and sample from q δ θ {\displaystyle q_{\delta }^{\theta }} instead of q 0 θ {\displaystyle q_{0}^{\theta }} . === Tractable forward processes === The theory of CTMC works for any continuous choice of rate matrices Q {\displaystyle Q} . However, most choices are computationally expensive and cannot be used in practice. In the case of continuous diffusion, the gaussian noise is used for the simple reason that the sum of any number of gaussians is still a gaussian. This allows one to sample any x t ∼ ρ t {\displaystyle x_{t}\sim \rho _{t}} by sampling a single x 0 ∼ ρ 0 {\displaystyle x_{0}\sim \rho _{0}} , followed by a single gaussian noise z ∼ N ( 0 , I ) {\displaystyle z\sim {\mathcal {N}}(0,I)} , and let x t = α ¯ t x 0 + σ t z {\displaystyle x_{t}={\sqrt {{\bar {\alpha }}_{t}}}x_{0}+\sigma _{t}z} , without needing any x s {\displaystyle x_{s}} for any 0 < s < t {\displaystyle 0 Read more →

  • Phrase structure grammar

    Phrase structure grammar

    The term phrase structure grammar was originally introduced by Noam Chomsky as the term for grammar studied previously by Emil Post and Axel Thue (Post canonical systems). Some authors, however, reserve the term for more restricted grammars in the Chomsky hierarchy: context-sensitive grammars or context-free grammars. In a broader sense, phrase structure grammars are also known as constituency grammars. The defining character of phrase structure grammars is thus their adherence to the constituency relation, as opposed to the dependency relation of dependency grammars. == History == In 1956, Chomsky wrote, "A phrase-structure grammar is defined by a finite vocabulary (alphabet) Vp, and a finite set Σ of initial strings in Vp, and a finite set F of rules of the form: X → Y, where X and Y are strings in Vp." == Constituency relation == In linguistics, phrase structure grammars are all those grammars that are based on the constituency relation, as opposed to the dependency relation associated with dependency grammars; hence, phrase structure grammars are also known as constituency grammars. Any of several related theories for the parsing of natural language qualify as constituency grammars, and most of them have been developed from Chomsky's work, including Government and binding theory Generalized phrase structure grammar Head-driven phrase structure grammar Lexical functional grammar The minimalist program Nanosyntax Further grammar frameworks and formalisms also qualify as constituency-based, although they may not think of themselves as having spawned from Chomsky's work, e.g. Arc pair grammar, and Categorial grammar.

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  • Memetic algorithm

    Memetic algorithm

    In computer science and operations research, a memetic algorithm (MA) is an extension of an evolutionary algorithm (EA) that aims to accelerate the evolutionary search for the optimum. An EA is a metaheuristic that reproduces the basic principles of biological evolution as a computer algorithm in order to solve challenging optimization or planning tasks, at least approximately. An MA uses one or more suitable heuristics or local search techniques to improve the quality of solutions generated by the EA and to speed up the search. The effects on the reliability of finding the global optimum depend on both the use case and the design of the MA. Memetic algorithms represent one of the recent growing areas of research in evolutionary computation. The term MA is now widely used as a synergy of evolutionary or any population-based approach with separate individual learning or local improvement procedures for problem search. Quite often, MAs are also referred to in the literature as Baldwinian evolutionary algorithms, Lamarckian EAs, cultural algorithms, or genetic local search. == Introduction == Inspired by both Darwinian principles of natural evolution and Dawkins' notion of a meme, the term memetic algorithm (MA) was introduced by Pablo Moscato in his technical report in 1989 where he viewed MA as being close to a form of population-based hybrid genetic algorithm (GA) coupled with an individual learning procedure capable of performing local refinements. The metaphorical parallels, on the one hand, to Darwinian evolution and, on the other hand, between memes and domain specific (local search) heuristics are captured within memetic algorithms thus rendering a methodology that balances well between generality and problem specificity. This two-stage nature makes them a special case of dual-phase evolution. The basic idea behind an MA is to combine the advantages of a global search performed by an EA (or another global search method) with the local refinement provided by one or more local search techniques, while avoiding their drawbacks. The main disadvantage of EAs is that, when searching in the vicinity of an optimum, they perform poorly in determining the exact position of that optimum. The downside of local search methods lies simply in the locality of their search relative to the chosen starting point. The combination of these two classes of methods aims to merge global and local search so that the advantages of both approaches can be leveraged. The idea of this approach can be illustrated by the search for the highest mountain in the Alps. A local search method would climb one of the mountains near the starting point, ignoring Mont Blanc as long as the starting point is not in its vicinity. An EA, on the other hand, will likely only find Mont Blanc after examining many other mountains, valleys, and hills, and then it will have difficulty identifying the summit cross. From the perspective of an MA’s global search procedure, however, only the summits of hills and mountains are seen, and its search is limited to finding the best summit. The open question is whether the additional effort required for the local search is worthwhile. This depends not only on the design of the MA but also on the specific application and the local search methods used. In the context of complex optimization, many different instantiations of memetic algorithms have been reported across a wide range of application domains, in general, converging to high-quality solutions more efficiently than their conventional evolutionary counterparts. In general, using the ideas of memetics within a computational framework is called memetic computing or memetic computation (MC). With MC, the traits of universal Darwinism are more appropriately captured. Viewed in this perspective, MA is a more constrained notion of MC. More specifically, MA covers one area of MC, in particular dealing with areas of evolutionary algorithms that marry other deterministic refinement techniques for solving optimization problems. MC extends the notion of memes to cover conceptual entities of knowledge-enhanced procedures or representations. == Theoretical Background == The no-free-lunch theorems of optimization and search state that all optimization strategies are equally effective with respect to the set of all optimization problems. Conversely, this means that one can expect the following: The more efficiently an algorithm solves a problem or class of problems, the less general it is and the more problem-specific knowledge it builds on. This insight leads directly to the recommendation to complement generally applicable metaheuristics with application-specific methods or heuristics, which fits well with the concept of MAs. == The development of MAs == === 1st generation === Pablo Moscato characterized an MA as follows: "Memetic algorithms are a marriage between a population-based global search and the heuristic local search made by each of the individuals. ... The mechanisms to do local search can be to reach a local optimum or to improve (regarding the objective cost function) up to a predetermined level." And he emphasizes "I am not constraining an MA to a genetic representation.". This original definition of MA although encompasses characteristics of cultural evolution (in the form of local refinement) in the search cycle, it may not qualify as a true evolving system according to universal Darwinism, since all the core principles of inheritance/memetic transmission, variation, and selection are missing. This suggests why the term MA stirred up criticisms and controversies among researchers when first introduced. The following pseudo code would correspond to this general definition of an MA: Pseudo code Procedure Memetic Algorithm Initialize: Generate an initial population, evaluate the individuals and assign a quality value to them; while Stopping conditions are not satisfied do Evolve a new population using stochastic search operators. Evaluate all individuals in the population and assign a quality value to them. Select the subset of individuals, Ω i l {\displaystyle \Omega _{il}} , that should undergo the individual improvement procedure. for each individual in Ω i l {\displaystyle \Omega _{il}} do Perform individual learning using meme(s) with frequency or probability of f i l {\displaystyle f_{il}} , with an intensity of t i l {\displaystyle t_{il}} . Proceed with Lamarckian or Baldwinian learning. end for end while Lamarckian learning in this context means to update the chromosome according to the improved solution found by the individual learning step, while Baldwinian learning leaves the chromosome unchanged and uses only the improved fitness. This pseudo code leaves open which steps are based on the fitness of the individuals and which are not. In question are the evolving of the new population and the selection of Ω i l {\displaystyle \Omega _{il}} . Since most MA implementations are based on EAs, the pseudo code of a corresponding representative of the first generation is also given here, following Krasnogor: Pseudo code Procedure Memetic Algorithm Based on an EA Initialization: t = 0 {\displaystyle t=0} ; // Initialization of the generation counter Randomly generate an initial population P ( t ) {\displaystyle P(t)} ; Compute the fitness f ( p ) ∀ p ∈ P ( t ) {\displaystyle f(p)\ \ \forall p\in P(t)} ; while Stopping conditions are not satisfied do Selection: Accordingly to f ( p ) {\displaystyle f(p)} choose a subset of P ( t ) {\displaystyle P(t)} and store it in M ( t ) {\displaystyle M(t)} ; Offspring: Recombine and mutate individuals p ∈ M ( t ) {\displaystyle p\in M(t)} and store them in M ′ ( t ) {\displaystyle M'(t)} ; Learning: Improve p ′ {\displaystyle p'} by local search or heuristic ∀ p ′ ∈ M ′ ( t ) {\displaystyle \forall p'\in M'(t)} ; Evaluation: Compute the fitness f ( p ′ ) ∀ p ′ ∈ M ′ ( t ) {\displaystyle f(p')\ \ \forall p'\in M'(t)} ; if Lamarckian learning then Update chromosome of p ′ {\displaystyle p'} according to improvement ∀ p ′ ∈ M ′ ( t ) {\displaystyle \forall p'\in M'(t)} ; fi New generation: Generate P ( t + 1 ) {\displaystyle P(t+1)} by selecting some individuals from P ( t ) {\displaystyle P(t)} and M ′ ( t ) {\displaystyle M'(t)} ; t = t + 1 {\displaystyle t=t+1} ; // Increment the generation counter end while Return best individual p ∈ P ( t − 1 ) {\displaystyle p\in P(t-1)} as result; There are some alternatives for this MA scheme. For example: All or some of the initial individuals may be improved by the meme(s). The parents may be locally improved instead of the offspring. Instead of all offspring, only a randomly selected or fitness-dependent fraction may undergo local improvement. The latter requires the evaluation of the offspring in M ′ ( t ) {\displaystyle M'(t)} prior to the Learning step. === 2nd generation === Multi-meme, hyper-heuristic and meta-Lamarckian MA are referred to as second generation MA exhibiting the principles of me

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  • Pruning (artificial neural network)

    Pruning (artificial neural network)

    In deep learning, pruning is the practice of removing parameters from an existing artificial neural network. The goal of this process is to reduce the size (parameter count) of the neural network (and therefore the computational resources required to run it) whilst maintaining accuracy. This can be compared to the biological process of synaptic pruning which takes place in mammalian brains during development. == Node (neuron) pruning == A basic algorithm for pruning is as follows: Evaluate the importance of each neuron. Rank the neurons according to their importance (assuming there is a clearly defined measure for "importance"). Remove the least important neuron. Check a termination condition (to be determined by the user) to see whether to continue pruning. == Edge (weight) pruning == Most work on neural network pruning does not remove full neurons or layers (structured pruning). Instead, it focuses on removing the most insignificant weights (unstructured pruning), namely, setting their values to zero. This can either be done globally by comparing weights from all layers in the network or locally by comparing weights in each layer separately. Different metrics can be used to measure the importance of each weight. Weight magnitude as well as combinations of weight and gradient information are commonly used metrics. Early work suggested also to change the values of non-pruned weights. == When to prune the neural network? == Pruning can be applied at three different stages: before training, during training, or after training. When pruning is performed during or after training, additional fine-tuning epochs are typically required. Each approach involves different trade-offs between accuracy and computational cost.

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  • Gremlin (query language)

    Gremlin (query language)

    Gremlin is a graph traversal language and virtual machine developed by Apache TinkerPop of the Apache Software Foundation. Gremlin works for both OLTP-based graph databases as well as OLAP-based graph processors. Gremlin's automata and functional language foundation enable Gremlin to naturally support imperative and declarative querying, host language agnosticism, user-defined domain specific languages, an extensible compiler/optimizer, single- and multi-machine execution models, and hybrid depth- and breadth-first evaluation with Turing completeness. As an explanatory analogy, Apache TinkerPop and Gremlin are to graph databases what the JDBC and SQL are to relational databases. Likewise, the Gremlin traversal machine is to graph computing as what the Java virtual machine is to general purpose computing. == History == 2009-10-30 the project is born, and immediately named "TinkerPop" 2009-12-25 v0.1 is the first release 2011-05-21 v1.0 is released 2012-05-24 v2.0 is released 2015-01-16 TinkerPop becomes an Apache Incubator project 2015-07-09 v3.0.0-incubating is released 2016-05-23 Apache TinkerPop becomes a top-level project 2016-07-18 v3.1.3 and v3.2.1 are first releases as Apache TinkerPop 2017-12-17 v3.3.1 is released 2018-05-08 v3.3.3 is released 2019-08-05 v3.4.3 is released 2020-02-20 v3.4.6 is released 2021-05-01 v3.5.0 is released 2022-04-04 v3.6.0 is released 2023-07-31 v3.7.0 is released 2025-11-12 v3.8.0 is released == Vendor integration == Gremlin is an Apache2-licensed graph traversal language that can be used by graph system vendors. There are typically two types of graph system vendors: OLTP graph databases and OLAP graph processors. The table below outlines those graph vendors that support Gremlin. == Traversal examples == The following examples of Gremlin queries and responses in a Gremlin-Groovy environment are relative to a graph representation of the MovieLens dataset. The dataset includes users who rate movies. Users each have one occupation, and each movie has one or more categories associated with it. The MovieLens graph schema is detailed below. === Simple traversals === For each vertex in the graph, emit its label, then group and count each distinct label. What year was the oldest movie made? What is Die Hard's average rating? === Projection traversals === For each category, emit a map of its name and the number of movies it represents. For each movie with at least 11 ratings, emit a map of its name and average rating. Sort the maps in decreasing order by their average rating. Emit the first 10 maps (i.e. top 10). === Declarative pattern matching traversals === Gremlin supports declarative graph pattern matching similar to SPARQL. For instance, the following query below uses Gremlin's match()-step. What 80's action movies do 30-something programmers like? Group count the movies by their name and sort the group count map in decreasing order by value. Clip the map to the top 10 and emit the map entries. === OLAP traversal === Which movies are most central in the implicit 5-stars graph? == Gremlin graph traversal machine == Gremlin is a virtual machine composed of an instruction set as well as an execution engine. An analogy is drawn between Gremlin and Java. === Gremlin steps (instruction set) === The following traversal is a Gremlin traversal in the Gremlin-Java8 dialect. The Gremlin language (i.e. the fluent-style of expressing a graph traversal) can be represented in any host language that supports function composition and function nesting. Due to this simple requirement, there exists various Gremlin dialects including Gremlin-Groovy, Gremlin-Scala, Gremlin-Clojure, etc. The above Gremlin-Java8 traversal is ultimately compiled down to a step sequence called a traversal. A string representation of the traversal above provided below. The steps are the primitives of the Gremlin graph traversal machine. They are the parameterized instructions that the machine ultimately executes. The Gremlin instruction set is approximately 30 steps. These steps are sufficient to provide general purpose computing and what is typically required to express the common motifs of any graph traversal query. Given that Gremlin is a language, an instruction set, and a virtual machine, it is possible to design another traversal language that compiles to the Gremlin traversal machine (analogous to how Scala compiles to the JVM). For instance, the popular SPARQL graph pattern match language can be compiled to execute on the Gremlin machine. The following SPARQL query would compile to In Gremlin-Java8, the SPARQL query above would be represented as below and compile to the identical Gremlin step sequence (i.e. traversal). === Gremlin Machine (virtual machine) === The Gremlin graph traversal machine can execute on a single machine or across a multi-machine compute cluster. Execution agnosticism allows Gremlin to run over both graph databases (OLTP) and graph processors (OLAP).

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  • Quantum natural language processing

    Quantum natural language processing

    Quantum natural language processing (QNLP) is the application of quantum computing to natural language processing (NLP). It computes word embeddings as parameterised quantum circuits that can solve NLP tasks faster than any classical computer. It is inspired by categorical quantum mechanics and the DisCoCat framework, making use of string diagrams to translate from grammatical structure to quantum processes. == Theory == The first quantum algorithm for natural language processing used the DisCoCat framework and Grover's algorithm to show a quadratic quantum speedup for a text classification task. It was later shown that quantum language processing is BQP-Complete, i.e. quantum language models are more expressive than their classical counterpart, unless quantum mechanics can be efficiently simulated by classical computers. These two theoretical results assume fault-tolerant quantum computation and a QRAM, i.e. an efficient way to load classical data on a quantum computer. Thus, they are not applicable to the noisy intermediate-scale quantum (NISQ) computers available today. == Experiments == The algorithm of Zeng and Coecke was adapted to the constraints of NISQ computers and implemented on IBM quantum computers to solve binary classification tasks. Instead of loading classical word vectors onto a quantum memory, the word vectors are computed directly as the parameters of quantum circuits. These parameters are optimised using methods from quantum machine learning to solve data-driven tasks such as question answering, machine translation and even algorithmic music composition.

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  • Witness set

    Witness set

    In combinatorics and computational learning theory, a witness set is a set of elements that distinguishes a given Boolean function from a given class of other Boolean functions. Let C {\displaystyle C} be a concept class over a domain X {\displaystyle X} (that is, a family of Boolean functions over X {\displaystyle X} ) and c {\displaystyle c} be a concept in X {\displaystyle X} (a single Boolean function). A subset S {\displaystyle S} of X {\displaystyle X} is a witness set for c {\displaystyle c} in X {\displaystyle X} if S {\displaystyle S} distinguishes c {\displaystyle c} from all the other functions in C {\displaystyle C} , in the sense that no other function in C {\displaystyle C} has the same values on S {\displaystyle S} . For a concept class with | C | {\displaystyle |C|} concepts, there exists a concept that has a witness of size at most log 2 ⁡ | C | {\displaystyle \log _{2}|C|} ; this bound is tight when C {\displaystyle C} consists of all Boolean functions over X {\displaystyle X} . By a result of Bondy (1972) there exists a single witness set of size at most | C | − 1 {\displaystyle |C|-1} that is valid for all concepts in C {\displaystyle C} ; this bound is tight when C {\displaystyle C} consists of the indicator functions of the empty set and some singleton sets. One way to construct this set is to interpret the concepts as bitstrings, and the domain elements as positions in these bitstrings. Then the set of positions at which a trie of the bitstrings branches forms the desired witness set. This construction is central to the operation of the fusion tree data structure. The minimum size of a witness set for c {\displaystyle c} is called the witness size or specification number and is denoted by w C ( c ) {\displaystyle w_{C}(c)} . The value max { w C ( c ) : c ∈ C } {\displaystyle \max\{w_{C}(c):c\in C\}} is called the teaching dimension of C {\displaystyle C} . It represents the number of examples of a concept that need to be presented by a teacher to a learner, in the worst case, to enable the learner to determine which concept is being presented. Witness sets have also been called teaching sets, keys, specifying sets, or discriminants. The "witness set" terminology is from Kushilevitz et al. (1996), who trace the concept of witness sets to work by Cover (1965).

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  • Bondy's theorem

    Bondy's theorem

    In mathematics, Bondy's theorem is a bound on the number of elements needed to distinguish the sets in a family of sets from each other. It belongs to the field of combinatorics, and is named after John Adrian Bondy, who published it in 1972. == Statement == The theorem is as follows: Let X be a set with n elements and let A1, A2, ..., An be distinct subsets of X. Then there exists a subset S of X with n − 1 elements such that the sets Ai ∩ S are all distinct. In other words, if we have a 0-1 matrix with n rows and n columns such that each row is distinct, we can remove one column such that the rows of the resulting n × (n − 1) matrix are distinct. == Example == Consider the 4 × 4 matrix [ 1 1 0 1 0 1 0 1 0 0 1 1 0 1 1 0 ] {\displaystyle {\begin{bmatrix}1&1&0&1\\0&1&0&1\\0&0&1&1\\0&1&1&0\end{bmatrix}}} where all rows are pairwise distinct. If we delete, for example, the first column, the resulting matrix [ 1 0 1 1 0 1 0 1 1 1 1 0 ] {\displaystyle {\begin{bmatrix}1&0&1\\1&0&1\\0&1&1\\1&1&0\end{bmatrix}}} no longer has this property: the first row is identical to the second row. Nevertheless, by Bondy's theorem we know that we can always find a column that can be deleted without introducing any identical rows. In this case, we can delete the third column: all rows of the 3 × 4 matrix [ 1 1 1 0 1 1 0 0 1 0 1 0 ] {\displaystyle {\begin{bmatrix}1&1&1\\0&1&1\\0&0&1\\0&1&0\end{bmatrix}}} are distinct. Another possibility would have been deleting the fourth column. == Learning theory application == From the perspective of computational learning theory, Bondy's theorem can be rephrased as follows: Let C be a concept class over a finite domain X. Then there exists a subset S of X with the size at most |C| − 1 such that S is a witness set for every concept in C. This implies that every finite concept class C has its teaching dimension bounded by |C| − 1.

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