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  • Gitter

    Gitter

    Gitter is an open-source instant messaging and chat room system for developers and users of GitLab and GitHub repositories. Gitter is provided as software as a service, with a free option providing all basic features and the ability to create a single private chat room, and paid subscription options for individuals and organisations, which allows them to create arbitrary numbers of private chat rooms. Individual chat rooms can be created for individual Git repositories on GitHub. Chatroom privacy follows the privacy settings of the associated GitHub repository: thus, a chatroom for a private (i.e. members-only) GitHub repository is also private to those with access to the repository. A graphical badge linking to the chat room can then be placed in the git repository's README file, bringing it to the attention of all users and developers of the project. Users can chat in the chat rooms, or access private chat rooms for repositories they have access to, by logging into Gitter via GitHub. Gitter is similar to Slack. Like Slack, it automatically logs all messages in the cloud. In late 2020, New Vector Limited acquired Gitter from GitLab, and announced Gitter's features would eventually be moved to New Vector's flagship product, Element, thereby replacing Gitter entirely. On February 13, 2023, Gitter migrated their service to a custom-branded Matrix instance that uses Element for its web interface. == Features prior to Migration to Matrix == Gitter supports: Notifications, which are batched up on mobile devices to avoid annoyance Inline media files Viewing and subscribing to ("starring") multiple chat rooms in one web browser tab Linking to individual files in the linked git repository Linking to GitHub issues (by typing # and then the issue number) in the linked Git repository, with hovercards showing the details of the issue GitHub-flavored Markdown in chat messages Online status for users User hovercards, based on their GitHub profiles and statistics (number of GitHub followers, etc.) Browsable and searchable message archives, grouped by month Connection from IRC clients Gitter on iOS support authentication using GitHub or Twitter === Integrations with non-GitHub sites and applications === Gitter integrates with Trello, Jenkins, Travis CI, Drone (software), Heroku, and Bitbucket, among others. === Apps === Official Gitter apps for Windows, Mac, Linux, iOS and Android are available. === Account registration === Like other chat technologies, Gitter allows clients to instant message each other. It allows people to authenticate using a GitHub account and join a chatroom from a web browser, thus not requiring one to install any software, or create additional online accounts. == History == Gitter was created by some developers who were initially trying to create a generic web-based chat product, but then wrote extra code to hook their chat application up to GitHub to meet their own needs, and realised that they could turn the combined product into a viable specialist product in its own right. Gitter came out of beta in 2014. During the beta period, Gitter delivered 1.8 million chat messages. On March 15, 2017, GitLab announced the acquisition of Gitter. Included in the announcement was the stated intent that Gitter would continue as a standalone project. It was published as open source under an MIT License as of June 2017. On September 30, 2020, New Vector Limited acquired Gitter from GitLab, and announced upcoming support for the Matrix protocol in Gitter, which went live by the end of the year. Gitter's features would eventually be moved to New Vector's flagship product, Element, thereby replacing Gitter entirely. On February 13, 2023, Gitter migrated their service to a custom-branded Matrix instance that uses Element for its web interface. == Implementation prior to Migration to Matrix == The Gitter web application is implemented entirely in JavaScript, with the back end being implemented on Node.js. The source code to the web application was formerly proprietary (it was open-sourced in June 2017), although Gitter had made numerous auxiliary projects available as open-source software, such as an IRC bridge for IRC users who prefer using IRC client applications (and their extra features) to converse in the Gitter chat rooms.

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  • Local tangent space alignment

    Local tangent space alignment

    Local tangent space alignment (LTSA) is a method for manifold learning, which can efficiently learn a nonlinear embedding into low-dimensional coordinates from high-dimensional data, and can also reconstruct high-dimensional coordinates from embedding coordinates. It is based on the intuition that when a manifold is correctly unfolded, all of the tangent hyperplanes to the manifold will become aligned. It begins by computing the k-nearest neighbors of every point. It computes the tangent space at every point by computing the d-first principal components in each local neighborhood. It then optimizes to find an embedding that aligns the tangent spaces, but it ignores the label information conveyed by data samples, and thus can not be used for classification directly.

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  • Mathematics of neural networks in machine learning

    Mathematics of neural networks in machine learning

    An artificial neural network (ANN) or neural network combines biological principles with advanced statistics to solve problems in domains such as pattern recognition and game-play. ANNs adopt the basic model of neuron analogues connected to each other in a variety of ways. == Structure == === Neuron === A neuron with label j {\displaystyle j} receiving an input p j ( t ) {\displaystyle p_{j}(t)} from predecessor neurons consists of the following components: an activation a j ( t ) {\displaystyle a_{j}(t)} , the neuron's state, depending on a discrete time parameter, an optional threshold θ j {\displaystyle \theta _{j}} , which stays fixed unless changed by learning, an activation function f {\displaystyle f} that computes the new activation at a given time t + 1 {\displaystyle t+1} from a j ( t ) {\displaystyle a_{j}(t)} , θ j {\displaystyle \theta _{j}} and the net input p j ( t ) {\displaystyle p_{j}(t)} giving rise to the relation a j ( t + 1 ) = f ( a j ( t ) , p j ( t ) , θ j ) , {\displaystyle a_{j}(t+1)=f(a_{j}(t),p_{j}(t),\theta _{j}),} and an output function f out {\displaystyle f_{\text{out}}} computing the output from the activation o j ( t ) = f out ( a j ( t ) ) . {\displaystyle o_{j}(t)=f_{\text{out}}(a_{j}(t)).} Often the output function is simply the identity function. An input neuron has no predecessor but serves as input interface for the whole network. Similarly an output neuron has no successor and thus serves as output interface of the whole network. === Propagation function === The propagation function computes the input p j ( t ) {\displaystyle p_{j}(t)} to the neuron j {\displaystyle j} from the outputs o i ( t ) {\displaystyle o_{i}(t)} and typically has the form p j ( t ) = ∑ i o i ( t ) w i j . {\displaystyle p_{j}(t)=\sum _{i}o_{i}(t)w_{ij}.} === Bias === A bias term can be added, changing the form to the following: p j ( t ) = ∑ i o i ( t ) w i j + w 0 j , {\displaystyle p_{j}(t)=\sum _{i}o_{i}(t)w_{ij}+w_{0j},} where w 0 j {\displaystyle w_{0j}} is a bias. == Neural networks as functions == Neural network models can be viewed as defining a function that takes an input (observation) and produces an output (decision) f : X → Y {\displaystyle \textstyle f:X\rightarrow Y} or a distribution over X {\displaystyle \textstyle X} or both X {\displaystyle \textstyle X} and Y {\displaystyle \textstyle Y} . Sometimes models are intimately associated with a particular learning rule. A common use of the phrase "ANN model" is really the definition of a class of such functions (where members of the class are obtained by varying parameters, connection weights, or specifics of the architecture such as the number of neurons, number of layers or their connectivity). Mathematically, a neuron's network function f ( x ) {\displaystyle \textstyle f(x)} is defined as a composition of other functions g i ( x ) {\displaystyle \textstyle g_{i}(x)} , that can further be decomposed into other functions. This can be conveniently represented as a network structure, with arrows depicting the dependencies between functions. A widely used type of composition is the nonlinear weighted sum, where f ( x ) = K ( ∑ i w i g i ( x ) ) {\displaystyle \textstyle f(x)=K\left(\sum _{i}w_{i}g_{i}(x)\right)} , where K {\displaystyle \textstyle K} (commonly referred to as the activation function) is some predefined function, such as the hyperbolic tangent, sigmoid function, softmax function, or rectifier function. The important characteristic of the activation function is that it provides a smooth transition as input values change, i.e. a small change in input produces a small change in output. The following refers to a collection of functions g i {\displaystyle \textstyle g_{i}} as a vector g = ( g 1 , g 2 , … , g n ) {\displaystyle \textstyle g=(g_{1},g_{2},\ldots ,g_{n})} . This figure depicts such a decomposition of f {\displaystyle \textstyle f} , with dependencies between variables indicated by arrows. These can be interpreted in two ways. The first view is the functional view: the input x {\displaystyle \textstyle x} is transformed into a 3-dimensional vector h {\displaystyle \textstyle h} , which is then transformed into a 2-dimensional vector g {\displaystyle \textstyle g} , which is finally transformed into f {\displaystyle \textstyle f} . This view is most commonly encountered in the context of optimization. The second view is the probabilistic view: the random variable F = f ( G ) {\displaystyle \textstyle F=f(G)} depends upon the random variable G = g ( H ) {\displaystyle \textstyle G=g(H)} , which depends upon H = h ( X ) {\displaystyle \textstyle H=h(X)} , which depends upon the random variable X {\displaystyle \textstyle X} . This view is most commonly encountered in the context of graphical models. The two views are largely equivalent. In either case, for this particular architecture, the components of individual layers are independent of each other (e.g., the components of g {\displaystyle \textstyle g} are independent of each other given their input h {\displaystyle \textstyle h} ). This naturally enables a degree of parallelism in the implementation. Networks such as the previous one are commonly called feedforward, because their graph is a directed acyclic graph. Networks with cycles are commonly called recurrent. Such networks are commonly depicted in the manner shown at the top of the figure, where f {\displaystyle \textstyle f} is shown as dependent upon itself. However, an implied temporal dependence is not shown. == Backpropagation == Backpropagation training algorithms fall into three categories: steepest descent (with variable learning rate and momentum, resilient backpropagation); quasi-Newton (Broyden–Fletcher–Goldfarb–Shanno, one step secant); Levenberg–Marquardt and conjugate gradient (Fletcher–Reeves update, Polak–Ribiére update, Powell–Beale restart, scaled conjugate gradient). === Algorithm === Let N {\displaystyle N} be a network with e {\displaystyle e} connections, m {\displaystyle m} inputs and n {\displaystyle n} outputs. Below, x 1 , x 2 , … {\displaystyle x_{1},x_{2},\dots } denote vectors in R m {\displaystyle \mathbb {R} ^{m}} , y 1 , y 2 , … {\displaystyle y_{1},y_{2},\dots } vectors in R n {\displaystyle \mathbb {R} ^{n}} , and w 0 , w 1 , w 2 , … {\displaystyle w_{0},w_{1},w_{2},\ldots } vectors in R e {\displaystyle \mathbb {R} ^{e}} . These are called inputs, outputs and weights, respectively. The network corresponds to a function y = f N ( w , x ) {\displaystyle y=f_{N}(w,x)} which, given a weight w {\displaystyle w} , maps an input x {\displaystyle x} to an output y {\displaystyle y} . In supervised learning, a sequence of training examples ( x 1 , y 1 ) , … , ( x p , y p ) {\displaystyle (x_{1},y_{1}),\dots ,(x_{p},y_{p})} produces a sequence of weights w 0 , w 1 , … , w p {\displaystyle w_{0},w_{1},\dots ,w_{p}} starting from some initial weight w 0 {\displaystyle w_{0}} , usually chosen at random. These weights are computed in turn: first compute w i {\displaystyle w_{i}} using only ( x i , y i , w i − 1 ) {\displaystyle (x_{i},y_{i},w_{i-1})} for i = 1 , … , p {\displaystyle i=1,\dots ,p} . The output of the algorithm is then w p {\displaystyle w_{p}} , giving a new function x ↦ f N ( w p , x ) {\displaystyle x\mapsto f_{N}(w_{p},x)} . The computation is the same in each step, hence only the case i = 1 {\displaystyle i=1} is described. w 1 {\displaystyle w_{1}} is calculated from ( x 1 , y 1 , w 0 ) {\displaystyle (x_{1},y_{1},w_{0})} by considering a variable weight w {\displaystyle w} and applying gradient descent to the function w ↦ E ( f N ( w , x 1 ) , y 1 ) {\displaystyle w\mapsto E(f_{N}(w,x_{1}),y_{1})} to find a local minimum, starting at w = w 0 {\displaystyle w=w_{0}} . This makes w 1 {\displaystyle w_{1}} the minimizing weight found by gradient descent. == Learning pseudocode == To implement the algorithm above, explicit formulas are required for the gradient of the function w ↦ E ( f N ( w , x ) , y ) {\displaystyle w\mapsto E(f_{N}(w,x),y)} where the function is E ( y , y ′ ) = | y − y ′ | 2 {\displaystyle E(y,y')=|y-y'|^{2}} . The learning algorithm can be divided into two phases: propagation and weight update. === Propagation === Propagation involves the following steps: Propagation forward through the network to generate the output value(s) Calculation of the cost (error term) Propagation of the output activations back through the network using the training pattern target to generate the deltas (the difference between the targeted and actual output values) of all output and hidden neurons. === Weight update === For each weight: Multiply the weight's output delta and input activation to find the gradient of the weight. Subtract the ratio (percentage) of the weight's gradient from the weight. The learning rate is the ratio (percentage) that influences the speed and quality of learning. The greater the ratio, the faster the neuron trains, but the lower the ratio, the more accurat

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  • Bioz

    Bioz

    Bioz is a search engine for life science experimentation. == History == Bioz was founded by Karin Lachmi and Daniel Levitt. Lachmi is a scientist who completed her postdoc in molecular and cellular biology at the Stanford University School of Medicine. During her lab work she found little available data regarding preferable lab tools, reagents and related products for experimentation. There are 50,000 vendors selling 300 million scientific products. She decided to start the company in order to provide researchers with adequate information for that purpose. Co-founder Daniel Levitt is an entrepreneur who sold his company WebAppoint to Microsoft in the year 2000. He also co-founded the company StemRad. At Bioz, Lachmi serves as the Chief Scientific Officer and Levitt serves as the chief executive officer. Bioz claims to have over a million researcher-users from 196 countries. Among the investors are Esther Dyson and the Stanford-StartX Fund. The company's advisory board includes Nobel Laureates in Chemistry Michael Levitt, Roger Kornberg, and Ada Yonath. == Technology == The company uses artificial intelligence, machine learning and natural language processing in order to extract experimentation data from scientific articles, such as the products that researchers used, the companies that supply the products, the protocol conditions that researchers selected, and the types of experiments and techniques. The algorithm ranks products based on how frequently they were used by researchers in their experiments, how recently a product was used, and the impact factor of the journal. The algorithm's output is a Bioz stars score for each product that was mentioned in an article. Bioz is a data-driven platform for product recommendations, which is contrary to platforms such as TripAdvisor and OpenTable that are based on user-generated reviews and ratings. The recommendations and scoring system that the company has developed are meant to assist researchers with the process of developing future medications and finding cures for diseases. They are guided towards products and techniques that were previously used by other researchers when planning and performing experiments. The company's revenue is based on selling SaaS subscriptions to researchers in biopharma companies. They also charge product suppliers for content syndication.

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  • Mistral Vibe

    Mistral Vibe

    Mistral Vibe or Vibe (Le Chat until May 2026), is a chatbot that uses generative artificial intelligence developed in France by Mistral AI. Mistral Vibe is available in iOS and Android. Its services are operated on a freemium model. == History == In February 2024, Mistral AI released Le Chat. In January 2025, Mistral AI made a content deal with Agence France-Presse (AFP) that lets Le Chat query AFP's entire archive dating back to 1983. On 6 February 2025, a mobile app for Le Chat was released for iOS and Android, and a subscription tier, Pro, was introduced at a cost of $14.99 per month. In July 2025, Mistral AI released Voxtral, an open-source language model that understands and generates audio. Mistral introduced a voice mode for chatting that uses Voxtral, and projects, which allows grouping chats and files. In September 2025, Le Chat introduced the capability to remember previous conversations. In May 2026, Mistral AI announced the rebrand from Le Chat to Mistral Vibe and new features were introduced at the same time.

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  • Stress majorization

    Stress majorization

    Stress majorization is an optimization strategy used in multidimensional scaling (MDS) where, for a set of n {\displaystyle n} m {\displaystyle m} -dimensional data items, a configuration X {\displaystyle X} of n {\displaystyle n} points in r {\displaystyle r} ( ≪ m ) {\displaystyle (\ll m)} -dimensional space is sought that minimizes the so-called stress function σ ( X ) {\displaystyle \sigma (X)} . Usually r {\displaystyle r} is 2 {\displaystyle 2} or 3 {\displaystyle 3} , i.e. the ( n × r ) {\displaystyle (n\times r)} matrix X {\displaystyle X} lists points in 2 − {\displaystyle 2-} or 3 − {\displaystyle 3-} dimensional Euclidean space so that the result may be visualised (i.e. an MDS plot). The function σ {\displaystyle \sigma } is a cost or loss function that measures the squared differences between ideal ( m {\displaystyle m} -dimensional) distances and actual distances in r-dimensional space. It is defined as: σ ( X ) = ∑ i < j ≤ n w i j ( d i j ( X ) − δ i j ) 2 {\displaystyle \sigma (X)=\sum _{i Read more →

  • Evolutionary multimodal optimization

    Evolutionary multimodal optimization

    In applied mathematics, multimodal optimization deals with optimization tasks that involve finding all or most of the multiple (at least locally optimal) solutions of a problem, as opposed to a single best solution. Evolutionary multimodal optimization is a branch of evolutionary computation, which is closely related to machine learning. Wong provides a short survey, wherein the chapter of Shir and the book of Preuss cover the topic in more detail. == Motivation == Knowledge of multiple solutions to an optimization task is especially helpful in engineering, when due to physical (and/or cost) constraints, the best results may not always be realizable. In such a scenario, if multiple solutions (locally and/or globally optimal) are known, the implementation can be quickly switched to another solution and still obtain the best possible system performance. Multiple solutions could also be analyzed to discover hidden properties (or relationships) of the underlying optimization problem, which makes them important for obtaining domain knowledge. In addition, the algorithms for multimodal optimization usually not only locate multiple optima in a single run, but also preserve their population diversity, resulting in their global optimization ability on multimodal functions. Moreover, the techniques for multimodal optimization are usually borrowed as diversity maintenance techniques to other problems. == Background == Classical techniques of optimization would need multiple restart points and multiple runs in the hope that a different solution may be discovered every run, with no guarantee however. Evolutionary algorithms (EAs) due to their population based approach, provide a natural advantage over classical optimization techniques. They maintain a population of possible solutions, which are processed every generation, and if the multiple solutions can be preserved over all these generations, then at termination of the algorithm we will have multiple good solutions, rather than only the best solution. Note that this is against the natural tendency of classical optimization techniques, which will always converge to the best solution, or a sub-optimal solution (in a rugged, “badly behaving” function). Finding and maintenance of multiple solutions is wherein lies the challenge of using EAs for multi-modal optimization. Niching is a generic term referred to as the technique of finding and preserving multiple stable niches, or favorable parts of the solution space possibly around multiple solutions, so as to prevent convergence to a single solution. The field of Evolutionary algorithms encompasses genetic algorithms (GAs), evolution strategy (ES), differential evolution (DE), particle swarm optimization (PSO), and other methods. Attempts have been made to solve multi-modal optimization in all these realms and most, if not all the various methods implement niching in some form or the other. == Multimodal optimization using genetic algorithms/evolution strategies == De Jong's crowding method, Goldberg's sharing function approach, Petrowski's clearing method, restricted mating, maintaining multiple subpopulations are some of the popular approaches that have been proposed by the community. The first two methods are especially well studied, however, they do not perform explicit separation into solutions belonging to different basins of attraction. The application of multimodal optimization within ES was not explicit for many years, and has been explored only recently. A niching framework utilizing derandomized ES was introduced by Shir, proposing the CMA-ES as a niching optimizer for the first time. The underpinning of that framework was the selection of a peak individual per subpopulation in each generation, followed by its sampling to produce the consecutive dispersion of search-points. The biological analogy of this machinery is an alpha-male winning all the imposed competitions and dominating thereafter its ecological niche, which then obtains all the sexual resources therein to generate its offspring. Recently, an evolutionary multiobjective optimization (EMO) approach was proposed, in which a suitable second objective is added to the originally single objective multimodal optimization problem, so that the multiple solutions form a weak pareto-optimal front. Hence, the multimodal optimization problem can be solved for its multiple solutions using an EMO algorithm. Improving upon their work, the same authors have made their algorithm self-adaptive, thus eliminating the need for pre-specifying the parameters. An approach that does not use any radius for separating the population into subpopulations (or species) but employs the space topology instead is proposed in.

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  • Lattice Miner

    Lattice Miner

    Lattice Miner is a formal concept analysis software tool for the construction, visualization and manipulation of concept lattices. It allows the generation of formal concepts and association rules as well as the transformation of formal contexts via apposition, subposition, reduction and object/attribute generalization, and the manipulation of concept lattices via approximation, projection and selection. Lattice Miner allows also the drawing of nested line diagrams. == Introduction == Formal concept analysis (FCA) is a branch of applied mathematics based on the formalization of concept and concept hierarchy and mainly used as a framework for conceptual clustering and rule mining. Over the last two decades, a collection of tools have emerged to help FCA users visualize and analyze concept lattices. They range from the earliest DOS-based implementations (e.g., ConImp and GLAD) to more recent implementations in Java like ToscanaJ, Galicia, ConExp and Coron. A main issue in the development of FCA tools is to visualize large concept lattices and provide efficient mechanisms to highlight patterns (e.g., concepts, associations) that could be relevant to the user. The initial objective of the FCA tool called Lattice Miner was to focus on visualization mechanisms for the representation of concept lattices, including nested line diagrams. Later on, many other interesting features were integrated into the tool. == Functional architecture of Lattice Miner == Lattice Miner is a Java-based platform whose functions are articulated around a core. The Lattice Miner core provides all low-level operations and structures for the representation and manipulation of contexts, lattices and association rules. Mainly, the core of Lattice Miner consists of three modules: context, concept and association rule modules. The user interface offers a context editor and concept lattice manipulator to assist the user in a set of tasks. The architecture of Lattice Miner is open and modular enough to allow the integration of new features and facilities in each one of its components. === Context module === The context module offers all the basic operations and structures to manipulate binary and valued contexts as well as context decomposition to produce nested line diagrams. Basic context operations include apposition, subposition, generalization, clarification, reduction as well as the complementary context computation. The module provides also the arrow relations (for context reduction and decomposition) [2]. The tool has an input LMB format and recognizes the binary format SLF found in Galicia and the format CEX produced by ConExp. === Concept module === The main function of the concept module is to generate the concepts of the current binary context and construct the corresponding lattice and nested structure (see Figures 2 and 3). It provides the user with basic operators such as projection, selection, and exact search as well as advanced features like pair approximation. Some known algorithms are included in this module such as Bordat’s procedure, Godin’s algorithm and NextClosure algorithm. The approximation feature implemented in Lattice Miner is based on the following idea: given a pair (X,Y) where X ⊆ G, and Y ⊆ M, is there a set of formal concepts (Ai,Bi) which are “close to” (X,Y)? To answer this question, The tool starts to identify the type of couple that the pair (X,Y) represents. It can be a formal concept, a protoconcept, a semiconcept or a preconcept. In the last case, the approximation is given by the interval [(X",X′),(Y′,Y")] and highlighted in the line diagram. === Association rule module === This module includes procedures for computing the (stem) Guigues–Duquenne base using NextClosure algorithm [3], as well as the generic and informative bases. Implications with negation can be obtained using the apposition of a context and its complementary. This module embeds also procedures for the computation of a non-redundant family C of implications and the closure of a set Y of attributes for the given implication set C. === User interface === The initial objective of Lattice Miner was to focus on lattice drawing and visualization either as a flat or nested structure by taking into account the cognitive process of human beings and known principles for lattice drawing (e.g., reducing the number of edge intersections, ensuring diagram symmetry). Some well-known visualization techniques were implemented such as focus & context and fisheye view. The basic idea behind focus & context visualization paradigm is to allow a viewer to see key (important) objects in full detail in the foreground (focus) while at the same time an overview of all the surrounding information (context) remains available in the background. Lattice Miner translates the focus & context paradigm into clear and blurred elements while the size of nodes and the intensity of their color were used to indicate their importance. Various forms of highlighting, labelling and animation are also provided. In order to better handle the display of large lattices, nested line diagrams are offered in the tool. Figure 3 shows the third level of the nested line diagram corresponding to the binary context of Figure 1 where three levels of nesting are defined. Each one of the inner nodes of this diagram represents a combination of attributes from the previous two (outer) levels. Real inner concepts (see the node on the left hand-side of the diagram) are identified by colored nodes while void elements are in grey color. Each node of levels 1 and 2 can be expanded to exhibit its internal line diagram. Both flat and nested diagrams can be saved as an image. Simple (flat) lattices can also be saved as an XML format file.

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  • Trigram

    Trigram

    Trigrams are a special case of the n-gram, where n is 3. They are often used in natural language processing for performing statistical analysis of texts and in cryptography for control and use of ciphers and codes. See results of analysis of "Letter Frequencies in the English Language". == Frequency == Context is very important, varying analysis rankings and percentages are easily derived by drawing from different sample sizes, different authors; or different document types: poetry, science-fiction, technology documentation; and writing levels: stories for children versus adults, military orders, and recipes. Typical cryptanalytic frequency analysis finds that the 16 most common character-level trigrams in English are: Because encrypted messages sent by telegraph often omit punctuation and spaces, cryptographic frequency analysis of such messages includes trigrams that straddle word boundaries. This causes trigrams such as "edt" to occur frequently, even though it may never occur in any one word of those messages. == Examples == The sentence "the quick red fox jumps over the lazy brown dog" has the following word-level trigrams: the quick red quick red fox red fox jumps fox jumps over jumps over the over the lazy the lazy brown lazy brown dog And the word-level trigram "the quick red" has the following character-level trigrams (where an underscore "_" marks a space): the he_ e_q _qu qui uic ick ck_ k_r _re red

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  • Bayesian network

    Bayesian network

    A Bayesian network (also known as a Bayes network, Bayes net, belief network, or decision network) is a probabilistic graphical model that represents a set of variables and their conditional dependencies via a directed acyclic graph (DAG). While it is one of several forms of causal notation, causal networks are special cases of Bayesian networks. Bayesian networks are ideal for taking an event that occurred and predicting the likelihood that any one of several possible known causes was the contributing factor. For example, a Bayesian network could represent the probabilistic relationships between diseases and symptoms. Given symptoms, the network can be used to compute the probabilities of the presence of various diseases. Efficient algorithms can perform inference and learning in Bayesian networks. Bayesian networks that model sequences of variables (e.g. speech signals or protein sequences) are called dynamic Bayesian networks. Generalizations of Bayesian networks that can represent and solve decision problems under uncertainty are called influence diagrams. == Graphical model == Formally, Bayesian networks are directed acyclic graphs (DAGs) whose nodes represent variables in the Bayesian sense: they may be observable quantities, latent variables, unknown parameters or hypotheses. Each edge represents a direct conditional dependency. Any pair of nodes that are not connected (i.e. no path connects one node to the other) represent variables that are conditionally independent of each other. Each node is associated with a probability function that takes, as input, a particular set of values for the node's parent variables, and gives (as output) the probability (or probability distribution, if applicable) of the variable represented by the node. For example, if m {\displaystyle m} parent nodes represent m {\displaystyle m} Boolean variables, then the probability function could be represented by a table of 2 m {\displaystyle 2^{m}} entries, one entry for each of the 2 m {\displaystyle 2^{m}} possible parent combinations. Similar ideas may be applied to undirected, and possibly cyclic, graphs such as Markov networks. == Example == Suppose we want to model the dependencies between three variables: the sprinkler (or more appropriately, its state - whether it is on or not), the presence or absence of rain and whether the grass is wet or not. Observe that two events can cause the grass to become wet: an active sprinkler or rain. Rain has a direct effect on the use of the sprinkler (namely that when it rains, the sprinkler usually is not active). This situation can be modeled with a Bayesian network (shown to the right). Each variable has two possible values, T (for true) and F (for false). The joint probability function is, by the chain rule of probability, Pr ( G , S , R ) = Pr ( G ∣ S , R ) Pr ( S ∣ R ) Pr ( R ) {\displaystyle \Pr(G,S,R)=\Pr(G\mid S,R)\Pr(S\mid R)\Pr(R)} where G = "Grass wet (true/false)", S = "Sprinkler turned on (true/false)", and R = "Raining (true/false)". The model can answer questions about the presence of a cause given the presence of an effect (so-called inverse probability) like "What is the probability that it is raining, given the grass is wet?" by using the conditional probability formula and summing over all nuisance variables: Pr ( R = T ∣ G = T ) = Pr ( G = T , R = T ) Pr ( G = T ) = ∑ x ∈ { T , F } Pr ( G = T , S = x , R = T ) ∑ x , y ∈ { T , F } Pr ( G = T , S = x , R = y ) {\displaystyle \Pr(R=T\mid G=T)={\frac {\Pr(G=T,R=T)}{\Pr(G=T)}}={\frac {\sum _{x\in \{T,F\}}\Pr(G=T,S=x,R=T)}{\sum _{x,y\in \{T,F\}}\Pr(G=T,S=x,R=y)}}} Using the expansion for the joint probability function Pr ( G , S , R ) {\displaystyle \Pr(G,S,R)} and the conditional probabilities from the conditional probability tables (CPTs) stated in the diagram, one can evaluate each term in the sums in the numerator and denominator. For example, Pr ( G = T , S = T , R = T ) = Pr ( G = T ∣ S = T , R = T ) Pr ( S = T ∣ R = T ) Pr ( R = T ) = 0.99 × 0.01 × 0.2 = 0.00198. {\displaystyle {\begin{aligned}\Pr(G=T,S=T,R=T)&=\Pr(G=T\mid S=T,R=T)\Pr(S=T\mid R=T)\Pr(R=T)\\&=0.99\times 0.01\times 0.2\\&=0.00198.\end{aligned}}} Then the numerical results (subscripted by the associated variable values) are Pr ( R = T ∣ G = T ) = 0.00198 T T T + 0.1584 T F T 0.00198 T T T + 0.288 T T F + 0.1584 T F T + 0.0 T F F = 891 2491 ≈ 35.77 % . {\displaystyle \Pr(R=T\mid G=T)={\frac {0.00198_{TTT}+0.1584_{TFT}}{0.00198_{TTT}+0.288_{TTF}+0.1584_{TFT}+0.0_{TFF}}}={\frac {891}{2491}}\approx 35.77\%.} To answer an interventional question, such as "What is the probability that it would rain, given that we wet the grass?" the answer is governed by the post-intervention joint distribution function Pr ( S , R ∣ do ( G = T ) ) = Pr ( S ∣ R ) Pr ( R ) {\displaystyle \Pr(S,R\mid {\text{do}}(G=T))=\Pr(S\mid R)\Pr(R)} obtained by removing the factor Pr ( G ∣ S , R ) {\displaystyle \Pr(G\mid S,R)} from the pre-intervention distribution. The do operator forces the value of G to be true. The probability of rain is unaffected by the action: Pr ( R ∣ do ( G = T ) ) = Pr ( R ) . {\displaystyle \Pr(R\mid {\text{do}}(G=T))=\Pr(R).} To predict the impact of turning the sprinkler on: Pr ( R , G ∣ do ( S = T ) ) = Pr ( R ) Pr ( G ∣ R , S = T ) {\displaystyle \Pr(R,G\mid {\text{do}}(S=T))=\Pr(R)\Pr(G\mid R,S=T)} with the term Pr ( S = T ∣ R ) {\displaystyle \Pr(S=T\mid R)} removed, showing that the action affects the grass but not the rain. These predictions may not be feasible given unobserved variables, as in most policy evaluation problems. The effect of the action do ( x ) {\displaystyle {\text{do}}(x)} can still be predicted, however, whenever the back-door criterion is satisfied. It states that, if a set Z of nodes can be observed that d-separates (or blocks) all back-door paths from X to Y then Pr ( Y , Z ∣ do ( x ) ) = Pr ( Y , Z , X = x ) Pr ( X = x ∣ Z ) . {\displaystyle \Pr(Y,Z\mid {\text{do}}(x))={\frac {\Pr(Y,Z,X=x)}{\Pr(X=x\mid Z)}}.} A back-door path is one that ends with an arrow into X. Sets that satisfy the back-door criterion are called "sufficient" or "admissible." For example, the set Z = R is admissible for predicting the effect of S = T on G, because R d-separates the (only) back-door path S ← R → G. However, if S is not observed, no other set d-separates this path and the effect of turning the sprinkler on (S = T) on the grass (G) cannot be predicted from passive observations. In that case P(G | do(S = T)) is not "identified". This reflects the fact that, lacking interventional data, the observed dependence between S and G is due to a causal connection or is spurious (apparent dependence arising from a common cause, R). (see Simpson's paradox) To determine whether a causal relation is identified from an arbitrary Bayesian network with unobserved variables, one can use the three rules of "do-calculus" and test whether all do terms can be removed from the expression of that relation, thus confirming that the desired quantity is estimable from frequency data. Using a Bayesian network can save considerable amounts of memory over exhaustive probability tables, if the dependencies in the joint distribution are sparse. For example, a naive way of storing the conditional probabilities of 10 two-valued variables as a table requires storage space for 2 10 = 1024 {\displaystyle 2^{10}=1024} values. If no variable's local distribution depends on more than three parent variables, the Bayesian network representation stores at most 10 ⋅ 2 3 = 80 {\displaystyle 10\cdot 2^{3}=80} values. One advantage of Bayesian networks is that it is intuitively easier for a human to understand (a sparse set of) direct dependencies and local distributions than complete joint distributions. == Inference and learning == Bayesian networks perform three main inference tasks: Inferring unobserved variables Parameter learning for the probability distributions of each node in the network Structure learning of the graphical network === Inferring unobserved variables === Because a Bayesian network is a complete model for its variables and their relationships, it can be used to answer probabilistic queries about them. For example, the network can be used to update knowledge of the state of a subset of variables when other variables (the evidence variables) are observed. This process of computing the posterior distribution of variables given evidence is called probabilistic inference. The posterior gives a universal sufficient statistic for detection applications, when choosing values for the variable subset that minimize some expected loss function, for instance the probability of decision error. A Bayesian network can thus be considered a mechanism for automatically applying Bayes' theorem to complex problems. The most common exact inference methods are: variable elimination, which eliminates (by integration or summation) the non-observed non-query variables one by one by distributing the sum over the prod

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  • Inverted pendulum

    Inverted pendulum

    An inverted pendulum is a pendulum that has its center of mass above its pivot point. It is unstable and falls over without additional help. It can be suspended stably in this inverted position by using a control system to monitor the angle of the pole and move the pivot point horizontally back under the center of mass when it starts to fall over, keeping it balanced. The inverted pendulum is a classic problem in dynamics and control theory and is used as a benchmark for testing control strategies. It is often implemented with the pivot point mounted on a cart that can move horizontally under control of an electronic servo system as shown in the photo; this is called a cart and pole apparatus. Most applications limit the pendulum to 1 degree of freedom by affixing the pole to an axis of rotation. Whereas a normal pendulum is stable when hanging downward, an inverted pendulum is inherently unstable, and must be actively balanced in order to remain upright; this can be done either by applying a torque at the pivot point, by moving the pivot point horizontally as part of a feedback system, changing the rate of rotation of a mass mounted on the pendulum on an axis parallel to the pivot axis and thereby generating a net torque on the pendulum, or by oscillating the pivot point vertically. A simple demonstration of moving the pivot point in a feedback system is achieved by balancing an upturned broomstick on the end of one's finger. A second type of inverted pendulum is a tiltmeter for tall structures, which consists of a wire anchored to the bottom of the foundation and attached to a float in a pool of oil at the top of the structure that has devices for measuring movement of the neutral position of the float away from its original position. == Overview == A pendulum with its bob hanging directly below the support pivot is at a stable equilibrium point, where it remains motionless because there is no torque on the pendulum. If displaced from this position, it experiences a restoring torque that returns it toward the equilibrium position. A pendulum with its bob in an inverted position, supported on a rigid rod directly above the pivot, 180° from its stable equilibrium position, is at an unstable equilibrium point. At this point again there is no torque on the pendulum, but the slightest displacement away from this position causes a gravitation torque on the pendulum that accelerates it away from equilibrium, causing it to fall over. In order to stabilize a pendulum in this inverted position, a feedback control system can be used, which monitors the pendulum's angle and moves the position of the pivot point sideways when the pendulum starts to fall over, to keep it balanced. The inverted pendulum is a classic problem in dynamics and control theory and is widely used as a benchmark for testing control algorithms (PID controllers, state-space representation, neural networks, fuzzy control, genetic algorithms, etc.). Variations on this problem include multiple links, allowing the motion of the cart to be commanded while maintaining the pendulum, and balancing the cart-pendulum system on a see-saw. The inverted pendulum is related to rocket or missile guidance, where the center of gravity is located behind the center of drag causing aerodynamic instability. The understanding of a similar problem can be shown by simple robotics in the form of a balancing cart. Balancing an upturned broomstick on the end of one's finger is a simple demonstration, and the problem is solved by self-balancing personal transporters such as the Segway PT, the self-balancing hoverboard and the self-balancing unicycle. Another way that an inverted pendulum may be stabilized, without any feedback or control mechanism, is by oscillating the pivot rapidly up and down. This is called Kapitza's pendulum. If the oscillation is sufficiently strong (in terms of its acceleration and amplitude) then the inverted pendulum can recover from perturbations in a strikingly counterintuitive manner. If the driving point moves in simple harmonic motion, the pendulum's motion is described by the Mathieu equation. == Equations of motion == The equations of motion of inverted pendulums are dependent on what constraints are placed on the motion of the pendulum. Inverted pendulums can be created in various configurations resulting in a number of Equations of Motion describing the behavior of the pendulum. === Stationary pivot point === In a configuration where the pivot point of the pendulum is fixed in space, the equation of motion is similar to that for an uninverted pendulum. The equation of motion below assumes no friction or any other resistance to movement, a rigid massless rod, and the restriction to 2-dimensional movement. θ ¨ − g ℓ sin ⁡ θ = 0 {\displaystyle {\ddot {\theta }}-{g \over \ell }\sin \theta =0} Where θ ¨ {\displaystyle {\ddot {\theta }}} is the angular acceleration of the pendulum, g {\displaystyle g} is the standard gravity on the surface of the Earth, ℓ {\displaystyle \ell } is the length of the pendulum, and θ {\displaystyle \theta } is the angular displacement measured from the equilibrium position. When θ ¨ {\displaystyle {\ddot {\theta }}} added to both sides, it has the same sign as the angular acceleration term: θ ¨ = g ℓ sin ⁡ θ {\displaystyle {\ddot {\theta }}={g \over \ell }\sin \theta } Thus, the inverted pendulum accelerates away from the vertical unstable equilibrium in the direction initially displaced, and the acceleration is inversely proportional to the length. Tall pendulums fall more slowly than short ones. Derivation using torque and moment of inertia: The pendulum is assumed to consist of a point mass, of mass m {\displaystyle m} , affixed to the end of a massless rigid rod, of length ℓ {\displaystyle \ell } , attached to a pivot point at the end opposite the point mass. The net torque of the system must equal the moment of inertia times the angular acceleration: τ n e t = I θ ¨ {\displaystyle {\boldsymbol {\tau }}_{\mathrm {net} }=I{\ddot {\theta }}} The torque due to gravity providing the net torque: τ n e t = m g ℓ sin ⁡ θ {\displaystyle {\boldsymbol {\tau }}_{\mathrm {net} }=mg\ell \sin \theta \,\!} Where θ {\displaystyle \theta \ } is the angle measured from the inverted equilibrium position. The resulting equation: I θ ¨ = m g ℓ sin ⁡ θ {\displaystyle I{\ddot {\theta }}=mg\ell \sin \theta \,\!} The moment of inertia for a point mass: I = m R 2 {\displaystyle I=mR^{2}} In the case of the inverted pendulum the radius is the length of the rod, ℓ {\displaystyle \ell } . Substituting in I = m ℓ 2 {\displaystyle I=m\ell ^{2}} m ℓ 2 θ ¨ = m g ℓ sin ⁡ θ {\displaystyle m\ell ^{2}{\ddot {\theta }}=mg\ell \sin \theta \,\!} Mass and ℓ 2 {\displaystyle \ell ^{2}} is divided from each side resulting in: θ ¨ = g ℓ sin ⁡ θ {\displaystyle {\ddot {\theta }}={g \over \ell }\sin \theta } === Inverted pendulum on a cart === An inverted pendulum on a cart consists of a mass m {\displaystyle m} at the top of a pole of length ℓ {\displaystyle \ell } pivoted on a horizontally moving base as shown in the adjacent image. The cart is restricted to linear motion and is subject to forces resulting in or hindering motion. === Essentials of stabilization === The essentials of stabilizing the inverted pendulum can be summarized qualitatively in three steps. 1. If the tilt angle θ {\displaystyle \theta } is to the right, the cart must accelerate to the right and vice versa. 2. The position of the cart x {\displaystyle x} relative to track center is stabilized by slightly modulating the null angle (the angle error that the control system tries to null) by the position of the cart, that is, null angle = θ + k x {\displaystyle =\theta +kx} where k {\displaystyle k} is small. This makes the pole want to lean slightly toward track center and stabilize at track center where the tilt angle is exactly vertical. Any offset in the tilt sensor or track slope that would otherwise cause instability translates into a stable position offset. A further added offset gives position control. 3. A normal pendulum subject to a moving pivot point such as a load lifted by a crane, has a peaked response at the pendulum radian frequency of ω p = g / ℓ {\displaystyle \omega _{p}={\sqrt {g/\ell }}} . To prevent uncontrolled swinging, the frequency spectrum of the pivot motion should be suppressed near ω p {\displaystyle \omega _{p}} . The inverted pendulum requires the same suppression filter to achieve stability. As a consequence of the null angle modulation strategy, the position feedback is positive, that is, a sudden command to move right produces an initial cart motion to the left followed by a move right to rebalance the pendulum. The interaction of the pendulum instability and the positive position feedback instability to produce a stable system is a feature that makes the mathematical analysis an interesting and challenging problem. === From Lagrange's equations === The equations of motion c

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  • Diffusion map

    Diffusion map

    Diffusion maps is a dimensionality reduction or feature extraction algorithm introduced by Coifman and Lafon which computes a family of embeddings of a data set into Euclidean space (often low-dimensional) whose coordinates can be computed from the eigenvectors and eigenvalues of a diffusion operator on the data. The Euclidean distance between points in the embedded space is equal to the "diffusion distance" between probability distributions centered at those points. Different from linear dimensionality reduction methods such as principal component analysis (PCA), diffusion maps are part of the family of nonlinear dimensionality reduction methods which focus on discovering the underlying manifold that the data has been sampled from. By integrating local similarities at different scales, diffusion maps give a global description of the data-set. Compared with other methods, the diffusion map algorithm is robust to noise perturbation and computationally inexpensive. == Definition of diffusion maps == Following and , diffusion maps can be defined in four steps. === Connectivity === Diffusion maps exploit the relationship between heat diffusion and random walk Markov chain. The basic observation is that if we take a random walk on the data, walking to a nearby data-point is more likely than walking to another that is far away. Let ( X , A , μ ) {\displaystyle (X,{\mathcal {A}},\mu )} be a measure space, where X {\displaystyle X} is the data set and μ {\displaystyle \mu } represents the distribution of the points on X {\displaystyle X} . Based on this, the connectivity k {\displaystyle k} between two data points, x {\displaystyle x} and y {\displaystyle y} , can be defined as the probability of walking from x {\displaystyle x} to y {\displaystyle y} in one step of the random walk. Usually, this probability is specified in terms of a kernel function of the two points: k : X × X → R {\displaystyle k:X\times X\rightarrow \mathbb {R} } . For example, the popular Gaussian kernel: k ( x , y ) = exp ⁡ ( − | | x − y | | 2 ϵ ) {\displaystyle k(x,y)=\exp \left(-{\frac {||x-y||^{2}}{\epsilon }}\right)} More generally, the kernel function has the following properties k ( x , y ) = k ( y , x ) {\displaystyle k(x,y)=k(y,x)} ( k {\displaystyle k} is symmetric) k ( x , y ) ≥ 0 ∀ x , y {\displaystyle k(x,y)\geq 0\,\,\forall x,y} ( k {\displaystyle k} is positivity preserving). The kernel constitutes the prior definition of the local geometry of the data-set. Since a given kernel will capture a specific feature of the data set, its choice should be guided by the application that one has in mind. This is a major difference with methods such as principal component analysis, where correlations between all data points are taken into account at once. Given ( X , k ) {\displaystyle (X,k)} , we can then construct a reversible discrete-time Markov chain on X {\displaystyle X} (a process known as the normalized graph Laplacian construction): d ( x ) = ∫ X k ( x , y ) d μ ( y ) {\displaystyle d(x)=\int _{X}k(x,y)d\mu (y)} and define: p ( x , y ) = k ( x , y ) d ( x ) {\displaystyle p(x,y)={\frac {k(x,y)}{d(x)}}} Although the new normalized kernel does not inherit the symmetric property, it does inherit the positivity-preserving property and gains a conservation property: ∫ X p ( x , y ) d μ ( y ) = 1 {\displaystyle \int _{X}p(x,y)d\mu (y)=1} === Diffusion process === From p ( x , y ) {\displaystyle p(x,y)} we can construct a transition matrix of a Markov chain ( M {\displaystyle M} ) on X {\displaystyle X} . In other words, p ( x , y ) {\displaystyle p(x,y)} represents the one-step transition probability from x {\displaystyle x} to y {\displaystyle y} , and M t {\displaystyle M^{t}} gives the t-step transition matrix. We define the diffusion matrix L {\displaystyle L} (it is also a version of graph Laplacian matrix) L i , j = k ( x i , x j ) {\displaystyle L_{i,j}=k(x_{i},x_{j})\,} We then define the new kernel L i , j ( α ) = k ( α ) ( x i , x j ) = L i , j ( d ( x i ) d ( x j ) ) α {\displaystyle L_{i,j}^{(\alpha )}=k^{(\alpha )}(x_{i},x_{j})={\frac {L_{i,j}}{(d(x_{i})d(x_{j}))^{\alpha }}}\,} or equivalently, L ( α ) = D − α L D − α {\displaystyle L^{(\alpha )}=D^{-\alpha }LD^{-\alpha }\,} where D is a diagonal matrix and D i , i = ∑ j L i , j . {\displaystyle D_{i,i}=\sum _{j}L_{i,j}.} We apply the graph Laplacian normalization to this new kernel: M = ( D ( α ) ) − 1 L ( α ) , {\displaystyle M=({D}^{(\alpha )})^{-1}L^{(\alpha )},\,} where D ( α ) {\displaystyle D^{(\alpha )}} is a diagonal matrix and D i , i ( α ) = ∑ j L i , j ( α ) . {\displaystyle {D}_{i,i}^{(\alpha )}=\sum _{j}L_{i,j}^{(\alpha )}.} p ( x j , t | x i ) = M i , j t {\displaystyle p(x_{j},t|x_{i})=M_{i,j}^{t}\,} One of the main ideas of the diffusion framework is that running the chain forward in time (taking larger and larger powers of M {\displaystyle M} ) reveals the geometric structure of X {\displaystyle X} at larger and larger scales (the diffusion process). Specifically, the notion of a cluster in the data set is quantified as a region in which the probability of escaping this region is low (within a certain time t). Therefore, t not only serves as a time parameter, but it also has the dual role of scale parameter. The eigendecomposition of the matrix M t {\displaystyle M^{t}} yields M i , j t = ∑ l λ l t ψ l ( x i ) ϕ l ( x j ) {\displaystyle M_{i,j}^{t}=\sum _{l}\lambda _{l}^{t}\psi _{l}(x_{i})\phi _{l}(x_{j})\,} where { λ l } {\displaystyle \{\lambda _{l}\}} is the sequence of eigenvalues of M {\displaystyle M} and { ψ l } {\displaystyle \{\psi _{l}\}} and { ϕ l } {\displaystyle \{\phi _{l}\}} are the biorthogonal left and right eigenvectors respectively. Due to the spectrum decay of the eigenvalues, only a few terms are necessary to achieve a given relative accuracy in this sum. ==== Parameter α and the diffusion operator ==== The reason to introduce the normalization step involving α {\displaystyle \alpha } is to tune the influence of the data point density on the infinitesimal transition of the diffusion. In some applications, the sampling of the data is generally not related to the geometry of the manifold we are interested in describing. In this case, we can set α = 1 {\displaystyle \alpha =1} and the diffusion operator approximates the Laplace–Beltrami operator. We then recover the Riemannian geometry of the data set regardless of the distribution of the points. To describe the long-term behavior of the point distribution of a system of stochastic differential equations, we can use α = 0.5 {\displaystyle \alpha =0.5} and the resulting Markov chain approximates the Fokker–Planck diffusion. With α = 0 {\displaystyle \alpha =0} , it reduces to the classical graph Laplacian normalization. === Diffusion distance === The diffusion distance at time t {\displaystyle t} between two points can be measured as the similarity of two points in the observation space with the connectivity between them. It is given by D t ( x i , x j ) 2 = ∑ y ( p ( y , t | x i ) − p ( y , t | x j ) ) 2 ϕ 0 ( y ) {\displaystyle D_{t}(x_{i},x_{j})^{2}=\sum _{y}{\frac {(p(y,t|x_{i})-p(y,t|x_{j}))^{2}}{\phi _{0}(y)}}} where ϕ 0 ( y ) {\displaystyle \phi _{0}(y)} is the stationary distribution of the Markov chain, given by the first left eigenvector of M {\displaystyle M} . Explicitly: ϕ 0 ( y ) = d ( y ) ∑ z ∈ X d ( z ) {\displaystyle \phi _{0}(y)={\frac {d(y)}{\sum _{z\in X}d(z)}}} Intuitively, D t ( x i , x j ) {\displaystyle D_{t}(x_{i},x_{j})} is small if there is a large number of short paths connecting x i {\displaystyle x_{i}} and x j {\displaystyle x_{j}} . There are several interesting features associated with the diffusion distance, based on our previous discussion that t {\displaystyle t} also serves as a scale parameter: Points are closer at a given scale (as specified by D t ( x i , x j ) {\displaystyle D_{t}(x_{i},x_{j})} ) if they are highly connected in the graph, therefore emphasizing the concept of a cluster. This distance is robust to noise, since the distance between two points depends on all possible paths of length t {\displaystyle t} between the points. From a machine learning point of view, the distance takes into account all evidences linking x i {\displaystyle x_{i}} to x j {\displaystyle x_{j}} , allowing us to conclude that this distance is appropriate for the design of inference algorithms based on the majority of preponderance. === Diffusion process and low-dimensional embedding === The diffusion distance can be calculated using the eigenvectors by D t ( x i , x j ) 2 = ∑ l λ l 2 t ( ψ l ( x i ) − ψ l ( x j ) ) 2 {\displaystyle D_{t}(x_{i},x_{j})^{2}=\sum _{l}\lambda _{l}^{2t}(\psi _{l}(x_{i})-\psi _{l}(x_{j}))^{2}\,} So the eigenvectors can be used as a new set of coordinates for the data. The diffusion map is defined as: Ψ t ( x ) = ( λ 1 t ψ 1 ( x ) , λ 2 t ψ 2 ( x ) , … , λ k t ψ k ( x ) ) {\displaystyle \Psi _{t}(x)=(\lambda _{1}^{t}\psi _{1}(x),\lambda _{2}^{t}\psi _{2}(x),\ld

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  • Gallery software

    Gallery software

    Gallery software is software that helps the user publish or share photos, pictures, videos or other digital media. Most galleries are located on Web servers, where users are allowed to register and publish their pictures. Gallery software usually features automatic image resizing, allows digital media be categorized into sets, and allows comments. == Types == Early digital media publishing and sharing was done with imageboards. The boards are by topics, sometimes called "chan". Each discussion in a "chan" are started with a piece of digital media, and follow-up discussions can contain another piece too. Software works in this way: Futallaby, Danbooru. Traditionally, galleries are managed. An administrator maintains a set of or hierarchy of albums. The users can upload their digital media in one of the existing albums defined by an administrator, or create their own albums. The users with sufficient permission can re-categorise the digital media others uploaded. Often, the site's administrator can define which album the users are allowed to categorise their media into, or delete other user's content. Examples are open source galleries Coppermine, Gallery Project. There are decentralised gallery software that does not have an administrator for managing contents. Pinterest, Flickr and DeviantArt has been successful with this model. Open source gallery software MediaGoblin works in this way. Each user can create their own "collections", to categorise theirs or other users' media. However users cannot put media into other user's collections. Each user's category is separate. There is no centralised theme or hierarchy for the media.

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  • C4.5 algorithm

    C4.5 algorithm

    C4.5 is an algorithm used to generate a decision tree developed by Ross Quinlan. C4.5 is an extension of Quinlan's earlier ID3 algorithm. The decision trees generated by C4.5 can be used for classification, and for this reason, C4.5 is often referred to as a statistical classifier. In 2011, authors of the Weka machine learning software described the C4.5 algorithm as "a landmark decision tree program that is probably the machine learning workhorse most widely used in practice to date". It became quite popular after ranking #1 in the Top 10 Algorithms in Data Mining pre-eminent paper published by Springer LNCS in 2008. == Algorithm == C4.5 builds decision trees from a set of training data in the same way as ID3, using the concept of information entropy. The training data is a set S = s 1 , s 2 , . . . {\displaystyle S={s_{1},s_{2},...}} of already classified samples. Each sample s i {\displaystyle s_{i}} consists of a p-dimensional vector ( x 1 , i , x 2 , i , . . . , x p , i ) {\displaystyle (x_{1,i},x_{2,i},...,x_{p,i})} , where the x j {\displaystyle x_{j}} represent attribute values or features of the sample, as well as the class in which s i {\displaystyle s_{i}} falls. At each node of the tree, C4.5 chooses the attribute of the data that most effectively splits its set of samples into subsets enriched in one class or the other. The splitting criterion is the normalized information gain (difference in entropy). The attribute with the highest normalized information gain is chosen to make the decision. The C4.5 algorithm then recurses on the partitioned sublists. This algorithm has a few base cases. All the samples in the list belong to the same class. When this happens, it simply creates a leaf node for the decision tree saying to choose that class. None of the features provide any information gain. In this case, C4.5 creates a decision node higher up the tree using the expected value of the class. Instance of previously unseen class encountered. Again, C4.5 creates a decision node higher up the tree using the expected value. === Pseudocode === In pseudocode, the general algorithm for building decision trees is: Check for the above base cases. For each attribute a, find the normalized information gain ratio from splitting on a. Let a_best be the attribute with the highest normalized information gain. Create a decision node that splits on a_best. Recurse on the sublists obtained by splitting on a_best, and add those nodes as children of node. == Improvements from ID3 algorithm == C4.5 made a number of improvements to ID3. Some of these are: Handling both continuous and discrete attributes: In order to handle continuous attributes, C4.5 creates a threshold and then splits the list into those whose attribute value is above the threshold and those that are less than or equal to it. Handling training data with missing attribute values: C4.5 allows attribute values to be marked as missing. Missing attribute values are simply not used in gain and entropy calculations. Handling attributes with differing costs. Pruning trees after creation: C4.5 goes back through the tree once it's been created and attempts to remove branches that do not help by replacing them with leaf nodes. == Improvements in C5.0/See5 algorithm == Quinlan went on to create C5.0 and See5 (C5.0 for Unix/Linux, See5 for Windows) which he markets commercially. C5.0 offers a number of improvements on C4.5. Some of these are: Speed - C5.0 is significantly faster than C4.5 (several orders of magnitude) Memory usage - C5.0 is more memory efficient than C4.5 Smaller decision trees - C5.0 gets similar results to C4.5 with considerably smaller decision trees. Support for boosting - Boosting improves the trees and gives them more accuracy. Weighting - C5.0 allows you to weight different cases and misclassification types. Winnowing - a C5.0 option automatically winnows the attributes to remove those that may be unhelpful. Source for a single-threaded Linux version of C5.0 is available under the GNU General Public License (GPL).

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  • Random forest

    Random forest

    Random forests or random decision forests is an ensemble learning method for classification, regression and other tasks that works by creating a multitude of decision trees during training. For classification tasks, the output of the random forest is the class selected by most trees. For regression tasks, the output is the average of the predictions of the trees. Random forests correct for decision trees' habit of overfitting to their training set. The first algorithm for random decision forests was created in 1995 by Tin Kam Ho using the random subspace method, which, in Ho's formulation, is a way to implement the "stochastic discrimination" approach to classification proposed by Eugene Kleinberg. An extension of the algorithm was developed by Leo Breiman and Adele Cutler, who registered "Random Forests" as a trademark in 2006 (as of 2019, owned by Minitab, Inc.). The extension combines Breiman's "bagging" idea and random selection of features, introduced first by Ho and later independently by Amit and Geman in order to construct a collection of decision trees with controlled variance. == History == The general method of random decision forests was first proposed by Salzberg and Heath in 1993, with a method that used a randomized decision tree algorithm to create multiple trees and then combine them using majority voting. This idea was developed further by Ho in 1995. Ho established that forests of trees splitting with oblique hyperplanes can gain accuracy as they grow without suffering from overtraining, as long as the forests are randomly restricted to be sensitive to only selected feature dimensions. A subsequent work along the same lines concluded that other splitting methods behave similarly, as long as they are randomly forced to be insensitive to some feature dimensions. This observation that a more complex classifier (a larger forest) gets more accurate nearly monotonically is in sharp contrast to the common belief that the complexity of a classifier can only grow to a certain level of accuracy before being hurt by overfitting. The explanation of the forest method's resistance to overtraining can be found in Kleinberg's theory of stochastic discrimination. The early development of Breiman's notion of random forests was influenced by the work of Amit and Geman who introduced the idea of searching over a random subset of the available decisions when splitting a node, in the context of growing a single tree. The idea of random subspace selection from Ho was also influential in the design of random forests. This method grows a forest of trees, and introduces variation among the trees by projecting the training data into a randomly chosen subspace before fitting each tree or each node. Finally, the idea of randomized node optimization, where the decision at each node is selected by a randomized procedure, rather than a deterministic optimization was first introduced by Thomas G. Dietterich. The proper introduction of random forests was made in a paper by Leo Breiman, that has become one of the world's most cited papers. This paper describes a method of building a forest of uncorrelated trees using a CART like procedure, combined with randomized node optimization and bagging. In addition, this paper combines several ingredients, some previously known and some novel, which form the basis of the modern practice of random forests, in particular: Using out-of-bag error as an estimate of the generalization error. Measuring variable importance through permutation. The report also offers the first theoretical result for random forests in the form of a bound on the generalization error which depends on the strength of the trees in the forest and their correlation. == Algorithm == === Preliminaries: decision tree learning === Decision trees are a popular method for various machine learning tasks. Tree learning is almost "an off-the-shelf procedure for data mining", say Hastie et al., "because it is invariant under scaling and various other transformations of feature values, is robust to inclusion of irrelevant features, and produces inspectable models. However, they are seldom accurate". In particular, trees that are grown very deep tend to learn highly irregular patterns: they overfit their training sets, i.e. have low bias, but very high variance. Random forests are a way of averaging multiple deep decision trees, trained on different parts of the same training set, with the goal of reducing the variance. This comes at the expense of a small increase in the bias and some loss of interpretability, but generally greatly boosts the performance in the final model. === Bagging === The training algorithm for random forests applies the general technique of bootstrap aggregating, or bagging, to tree learners. Given a training set X = x1, ..., xn with responses Y = y1, ..., yn, bagging repeatedly (B times) selects a random sample with replacement of the training set and fits trees to these samples: After training, predictions for unseen samples x' can be made by averaging the predictions from all the individual regression trees on x': f ^ = 1 B ∑ b = 1 B f b ( x ′ ) {\displaystyle {\hat {f}}={\frac {1}{B}}\sum _{b=1}^{B}f_{b}(x')} or by taking the plurality vote in the case of classification trees. This bootstrapping procedure leads to better model performance because it decreases the variance of the model, without increasing the bias. This means that while the predictions of a single tree are highly sensitive to noise in its training set, the average of many trees is not, as long as the trees are not correlated. Simply training many trees on a single training set would give strongly correlated trees (or even the same tree many times, if the training algorithm is deterministic); bootstrap sampling is a way of de-correlating the trees by showing them different training sets. Additionally, an estimate of the uncertainty of the prediction can be made as the standard deviation of the predictions from all the individual regression trees on x′: σ = ∑ b = 1 B ( f b ( x ′ ) − f ^ ) 2 B − 1 . {\displaystyle \sigma ={\sqrt {\frac {\sum _{b=1}^{B}(f_{b}(x')-{\hat {f}})^{2}}{B-1}}}.} The number B of samples (equivalently, of trees) is a free parameter. Typically, a few hundred to several thousand trees are used, depending on the size and nature of the training set. B can be optimized using cross-validation, or by observing the out-of-bag error: the mean prediction error on each training sample xi, using only the trees that did not have xi in their bootstrap sample. The training and test error tend to level off after some number of trees have been fit. === From bagging to random forests === The above procedure describes the original bagging algorithm for trees. Random forests also include another type of bagging scheme: they use a modified tree learning algorithm that selects, at each candidate split in the learning process, a random subset of the features. This process is sometimes called "feature bagging". The reason for doing this is the correlation of the trees in an ordinary bootstrap sample: if one or a few features are very strong predictors for the response variable (target output), these features will be selected in many of the B trees, causing them to become correlated. An analysis of how bagging and random subspace projection contribute to accuracy gains under different conditions is given by Ho. Typically, for a classification problem with p {\displaystyle p} features, p {\displaystyle {\sqrt {p}}} (rounded down) features are used in each split. For regression problems the inventors recommend p / 3 {\displaystyle p/3} (rounded down) with a minimum node size of 5 as the default. In practice, the best values for these parameters should be tuned on a case-to-case basis for every problem. === ExtraTrees === Adding one further step of randomization yields extremely randomized trees, or ExtraTrees. As with ordinary random forests, they are an ensemble of individual trees, but there are two main differences: (1) each tree is trained using the whole learning sample (rather than a bootstrap sample), and (2) the top-down splitting is randomized: for each feature under consideration, a number of random cut-points are selected, instead of computing the locally optimal cut-point (based on, e.g., information gain or the Gini impurity). The values are chosen from a uniform distribution within the feature's empirical range (in the tree's training set). Then, of all the randomly chosen splits, the split that yields the highest score is chosen to split the node. Similar to ordinary random forests, the number of randomly selected features to be considered at each node can be specified. Default values for this parameter are p {\displaystyle {\sqrt {p}}} for classification and p {\displaystyle p} for regression, where p {\displaystyle p} is the number of features in the model. === Random forests for high-dimensional data === The basic random forest procedure may

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