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  Digital Michelangelo Project

  The Digital Michelangelo Project was a pioneering initiative undertaken during the 1998–1999 academic year to digitize the sculptures and architecture of Michelangelo using advanced laser scanning technology. The project was led by a team of 30 faculty, staff, and students from Stanford University and the University of Washington, with the aim of creating high-resolution 3D models of Michelangelo's works for scholarly, educational, and preservation purposes. == Objectives == The primary goals of the Digital Michelangelo Project were: To apply recent advancements in laser rangefinder technology for digitizing large cultural artifacts. To create detailed digital archives of Michelangelo's sculptures and architectural spaces for future study and analysis. To explore potential educational and curatorial applications for 3D scanned data. === Artworks digitized === The project involved scanning several iconic works by Michelangelo, including: David The Unfinished Slaves (Atlas, Awakening, Bearded, and Youthful) St. Matthew The allegorical statues from the Medici tombs (Night, Day, Dawn, and Dusk) The architectural interiors of the Tribuna del David at the Galleria dell'Accademia and the New Sacristy in the Medici Chapels. == Technology and methodology == === 3D scanning === The project's primary scanner was a laser triangulation rangefinder mounted on a motorized gantry, custom-built by Cyberware Inc. The scanner used a laser sheet to project onto an object, capturing its shape through triangulation. Multiple scans were taken from various angles and combined into a single, detailed 3D mesh. The resolution achieved was fine enough to capture even Michelangelo's chisel marks, with triangles approximately 0.25 mm on each side. In addition to shape data, color data was captured using a spotlight and a secondary camera, enabling the creation of textured 3D models. === Data processing === The project developed a software suite for processing the scanned data. This included: Aligning and merging multiple scans into a seamless 3D model. Filling holes in the geometry caused by inaccessible areas. Correcting color data for lighting inconsistencies and shadowing. Non-photorealistic rendering techniques were also applied, highlighting surface features such as Michelangelo’s chisel marks for enhanced visualization. == Logistical challenges == The scale and complexity of the project presented several challenges: Data size: The dataset for David alone comprised 2 billion polygons and 7,000 color images, occupying 60 GB of storage. Artifact safety: Ensuring the safety of the statues during scanning required extensive crew training, foam-encased equipment, and collision-prevention mechanisms. == Applications and impact == The digitized models have numerous potential applications: Art history: Allowing precise measurements and geometric analysis, such as determining chisel types or evaluating structural balance. Education: Providing new ways to study art, including interactive viewing from unconventional angles and with custom lighting. Museum curation: Enhancing visitor experiences through interactive kiosks and virtual models. The project demonstrated the potential for 3D technology to preserve and disseminate cultural heritage. == Data distribution == The project's models are available through Stanford University for scholarly purposes, under strict licensing due to Italian intellectual property laws. === ScanView === To provide public access to the 3D models while respecting usage restrictions, the project developed ScanView, a client/server rendering system. ScanView allows users to view and interact with high-resolution 3D models without downloading the data. The client component consists of a freely available viewer program and simplified 3D models. Users can navigate these models locally, adjusting position, orientation, lighting, and surface appearance. When a user finalizes a view, the client queries a remote server for a high-resolution rendering of the model, which is sent back to overwrite the simplified version on the user’s screen. A typical query-response cycle takes 1–2 seconds, depending on network conditions. To protect the models from unauthorized reconstruction, the system employs several security measures, including: Encrypting queries Perturbing viewpoint and lighting parameters Adding noise and warping rendered images Compressing images before transmission ScanView operates on Windows-based PCs and provides access to selected models, including David and St. Matthew, as well as other artifacts such as fragments of the Forma Urbis Romae and items from the Stanford 3D Scanning Repository. == Sponsors == The Digital Michelangelo Project was supported by Stanford University, Interval Research Corporation, and the Paul G. Allen Foundation for the Arts.

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  Causal AI

  Causal AI is a technique in artificial intelligence that builds a causal model and can thereby make inferences using causality rather than just correlation. One practical use for causal AI is for organisations to explain decision-making and the causes for a decision. Systems based on causal AI, by identifying the underlying web of causality for a behaviour or event, provide insights that solely predictive AI models might fail to extract from historical data. An analysis of causality may be used to supplement human decisions in situations where understanding the causes behind an outcome is necessary, such as quantifying the impact of different interventions, policy decisions or performing scenario planning. A 2024 paper from Google DeepMind demonstrated mathematically that "Any agent capable of adapting to a sufficiently large set of distributional shifts must have learned a causal model". The paper offers the interpretation that learning to generalise beyond the original training set requires learning a causal model, concluding that causal AI is necessary for artificial general intelligence. == History == The concept of causal AI and the limits of machine learning were raised by Judea Pearl, the Turing Award-winning computer scientist and philosopher, in 2018's The Book of Why: The New Science of Cause and Effect. Pearl asserted: “Machines' lack of understanding of causal relations is perhaps the biggest roadblock to giving them human-level intelligence.” In 2020, Columbia University established a Causal AI Lab under Director Elias Bareinboim. Professor Bareinboim's research focuses on causal and counterfactual inference and their applications to data-driven fields in the health and social sciences as well as artificial intelligence and machine learning. Technological research and consulting firm Gartner for the first time included causal AI in its 2022 Hype Cycle report, citing it as one of five critical technologies in accelerated AI automation. Causal AI is closely related to but distinct from fields such as causal inference, explainable AI and causal reasoning. While causal inference focuses on estimating cause-effect relationships (often from observational data), causal AI emphasises the integration of those causal models into AI systems for prediction, planning and adaptation.

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  Literature review

  A literature review is an overview of previously published works on a particular topic. The term can refer to a full scholarly paper or a section of a scholarly work such as books or articles. Either way, a literature review provides the researcher/author and the audiences with general information of an existing knowledge of a particular topic. A good literature review has a proper research question, a proper theoretical framework, and/or a chosen research method. It serves to situate the current study within the body of the relevant literature and provides context for the reader. In such cases, the review usually precedes the methodology and results sections of the work. Producing a literature review is often part of a graduate and post-graduate requirement, included in the preparation of a thesis, dissertation, or a journal article. Literature reviews are also common in a research proposal or prospectus (the document approved before a student formally begins a dissertation or thesis). A literature review can be a type of a review article. In this sense, it is a scholarly paper that presents the current knowledge including substantive findings as well as theoretical and methodological contributions to a particular topic. Literature reviews are secondary sources and do not report new or original experimental work. Most often associated with academic-oriented literature, such reviews are found in academic journals and are not to be confused with book reviews, which may also appear in the same publication. Literature reviews are a basis for research in nearly every academic field. == Types == Since the concept of a systematic review was formalized in the 1970s, a basic division among types of reviews is the dichotomy of narrative reviews versus systematic reviews. The main types of narrative reviews are evaluative, exploratory, and instrumental. A fourth type of review of literature (the scientific literature) is the systematic review but it is not called a literature review, which absent further specification, conventionally refers to narrative reviews. A systematic review focuses on a specific research question to identify, appraise, select, and synthesize all high-quality research evidence and arguments relevant to that question. A meta-analysis is typically a systematic review using statistical methods to effectively combine the data used on all selected studies to produce a more reliable result. Torraco (2016) describes an integrative literature review. The purpose of an integrative literature review is to generate new knowledge on a topic through the process of review, critique, and synthesis of the literature under investigation. George et al (2023) offer an extensive overview of review approaches. They also propose a model for selecting an approach by looking at the purpose, object, subject, community, and practices of the review. They describe six different types of review, each with their own unique purposes: Exploratory or scoping reviews focus on breadth as opposed to depth Systematic or integrative reviews integrate empirical studies on a topic Meta-narrative reviews are qualitative and use literature to compare research or practice communities Problematizing or critical reviews propose new perspectives on a concept by association with other literature Meta-analyses and meta-regressions integrate quantitative studies and identify moderators Mixed research syntheses combine other review approaches in the same paper == Process and product == Shields and Rangarajan (2013) distinguish between the process of reviewing the literature and a finished work or product known as a literature review. The process of reviewing the literature is often ongoing and informs many aspects of the empirical research project. The process of reviewing the literature requires different kinds of activities and ways of thinking. Shields and Rangarajan (2013) and Granello (2001) link the activities of doing a literature review with Benjamin Bloom's revised taxonomy of the cognitive domain (ways of thinking: remembering, understanding, applying, analyzing, evaluating, and creating). === Use of artificial intelligence in a literature review === Artificial intelligence (AI) is reshaping traditional literature reviews across various disciplines. Generative pre-trained transformers, such as ChatGPT, are often used by students and academics for review purposes. Since 2023, an increasing number of tools powered by large language models and other artificial intelligence technologies have been developed to assist, automate, or generate literature reviews. Nevertheless, the employment of ChatGPT in academic reviews is problematic due to ChatGPT's propensity to "hallucinate". In response, efforts are being made to mitigate these hallucinations through the integration of plugins. For instance, Rad et al. (2023) used ScholarAI for review in cardiothoracic surgery.

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  Enterprise Objects Framework

  The Enterprise Objects Framework, or simply EOF, was introduced by NeXT in 1994 as a pioneering object-relational mapping product for its NeXTSTEP and OpenStep development platforms. EOF abstracts the process of interacting with a relational database by mapping database rows to Java or Objective-C objects. This largely relieves developers from writing low-level SQL code. EOF enjoyed some niche success in the mid-1990s among financial institutions who were attracted to the rapid application development advantages of NeXT's object-oriented platform. Since Apple Inc's merger with NeXT in 1996, EOF has evolved into a fully integrated part of WebObjects, an application server also originally from NeXT. Many of the core concepts of EOF re-emerged as part of Core Data, which further abstracts the underlying data formats to allow it to be based on non-SQL stores. == History == In the early 1990s NeXT Computer recognized that connecting to databases was essential to most businesses and yet also potentially complex. Every data source has a different data-access language (or API), driving up the costs to learn and use each vendor's product. The NeXT engineers wanted to apply the advantages of object-oriented programming, by getting objects to "talk" to relational databases. As the two technologies are very different, the solution was to create an abstraction layer, insulating developers from writing the low-level procedural code (SQL) specific to each data source. The first attempt came in 1992 with the release of Database Kit (DBKit), which wrapped an object-oriented framework around any database. Unfortunately, NEXTSTEP at the time was not powerful enough and DBKit had serious design flaws. NeXT's second attempt came in 1994 with the Enterprise Objects Framework (EOF) version 1, a complete rewrite that was far more modular and OpenStep compatible. EOF 1.0 was the first product released by NeXT using the Foundation Kit and introduced autoreleased objects to the developer community. The development team at the time was only four people: Jack Greenfield, Rich Williamson, Linus Upson and Dan Willhite. EOF 2.0, released in late 1995, further refined the architecture, introducing the editing context. At that point, the development team consisted of Dan Willhite, Craig Federighi, Eric Noyau and Charly Kleissner. EOF achieved a modest level of popularity in the financial programming community in the mid-1990s, but it would come into its own with the emergence of the World Wide Web and the concept of web applications. It was clear that EOF could help companies plug their legacy databases into the Web without any rewriting of that data. With the addition of frameworks to do state management, load balancing and dynamic HTML generation, NeXT was able to launch the first object-oriented Web application server, WebObjects, in 1996, with EOF at its core. In 2000, Apple Inc. (which had merged with NeXT) officially dropped EOF as a standalone product, meaning that developers would be unable to use it to create desktop applications for the forthcoming Mac OS X. It would, however, continue to be an integral part of a major new release of WebObjects. WebObjects 5, released in 2001, was significant for the fact that its frameworks had been ported from their native Objective-C programming language to the Java language. Critics of this change argue that most of the power of EOF was a side effect of its Objective-C roots, and that EOF lost the beauty or simplicity it once had. Third-party tools, such as EOGenerator, help fill the deficiencies introduced by Java (mainly due to the loss of categories). The Objective-C code base was re-introduced with some modifications to desktop application developers as Core Data, part of Apple's Cocoa API, with the release of Mac OS X Tiger in April 2005. == How EOF works == Enterprise Objects provides tools and frameworks for object-relational mapping. The technology specializes in providing mechanisms to retrieve data from various data sources, such as relational databases via JDBC and JNDI directories, and mechanisms to commit data back to those data sources. These mechanisms are designed in a layered, abstract approach that allows developers to think about data retrieval and commitment at a higher level than a specific data source or data source vendor. Central to this mapping is a model file (an "EOModel") that you build with a visual tool — either EOModeler, or the EOModeler plug-in to Xcode. The mapping works as follows: Database tables are mapped to classes. Database columns are mapped to class attributes. Database rows are mapped to objects (or class instances). You can build data models based on existing data sources or you can build data models from scratch, which you then use to create data structures (tables, columns, joins) in a data source. The result is that database records can be transposed into Java objects. The advantage of using data models is that applications are isolated from the idiosyncrasies of the data sources they access. This separation of an application's business logic from database logic allows developers to change the database an application accesses without needing to change the application. EOF provides a level of database transparency not seen in other tools and allows the same model to be used to access different vendor databases and even allows relationships across different vendor databases without changing source code. Its power comes from exposing the underlying data sources as managed graphs of persistent objects. In simple terms, this means that it organizes the application's model layer into a set of defined in-memory data objects. It then tracks changes to these objects and can reverse those changes on demand, such as when a user performs an undo command. Then, when it is time to save changes to the application's data, it archives the objects to the underlying data sources. === Using Inheritance === In designing Enterprise Objects developers can leverage the object-oriented feature known as inheritance. A Customer object and an Employee object, for example, might both inherit certain characteristics from a more generic Person object, such as name, address, and phone number. While this kind of thinking is inherent in object-oriented design, relational databases have no explicit support for inheritance. However, using Enterprise Objects, you can build data models that reflect object hierarchies. That is, you can design database tables to support inheritance by also designing enterprise objects that map to multiple tables or particular views of a database table. == Enterprise Objects (EOs) == An Enterprise Object is analogous to what is often known in object-oriented programming as a business object — a class which models a physical or conceptual object in the business domain (e.g. a customer, an order, an item, etc.). What makes an EO different from other objects is that its instance data maps to a data store. Typically, an enterprise object contains key-value pairs that represent a row in a relational database. The key is basically the column name, and the value is what was in that row in the database. So it can be said that an EO's properties persist beyond the life of any particular running application. More precisely, an Enterprise Object is an instance of a class that implements the com.webobjects.eocontrol.EOEnterpriseObject interface. An Enterprise Object has a corresponding model (called an EOModel) that defines the mapping between the class's object model and the database schema. However, an enterprise object doesn't explicitly know about its model. This level of abstraction means that database vendors can be switched without it affecting the developer's code. This gives Enterprise Objects a high degree of reusability. == EOF and Core Data == Despite their common origins, the two technologies diverged, with each technology retaining a subset of the features of the original Objective-C code base, while adding some new features. === Features Supported Only by EOF === EOF supports custom SQL; shared editing contexts; nested editing contexts; and pre-fetching and batch faulting of relationships, all features of the original Objective-C implementation not supported by Core Data. Core Data also does not provide the equivalent of an EOModelGroup—the NSManagedObjectModel class provides methods for merging models from existing models, and for retrieving merged models from bundles. === Features Supported Only by Core Data === Core Data supports fetched properties; multiple configurations within a managed object model; local stores; and store aggregation (the data for a given entity may be spread across multiple stores); customization and localization of property names and validation warnings; and the use of predicates for property validation. These features of the original Objective-C implementation are not supported by the Java implementation.

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  Robot learning

  Robot learning is a research field at the intersection of machine learning and robotics. It studies techniques allowing a robot to acquire novel skills or adapt to its environment through learning algorithms. The embodiment of the robot, situated in a physical embedding, provides at the same time specific difficulties (e.g. high-dimensionality, real time constraints for collecting data and learning) and opportunities for guiding the learning process (e.g. sensorimotor synergies, motor primitives). Example of skills that are targeted by learning algorithms include sensorimotor skills such as locomotion, grasping, active object categorization, as well as interactive skills such as joint manipulation of an object with a human peer, and linguistic skills such as the grounded and situated meaning of human language. Learning can happen either through autonomous self-exploration or through guidance from a human teacher, like for example in robot learning by imitation. Robot learning can be closely related to adaptive control, reinforcement learning as well as developmental robotics which considers the problem of autonomous lifelong acquisition of repertoires of skills. While machine learning is frequently used by computer vision algorithms employed in the context of robotics, these applications are usually not referred to as "robot learning". == Imitation learning == Many research groups are developing techniques where robots learn by imitating. This includes various techniques for learning from demonstration (sometimes also referred to as "programming by demonstration") and observational learning. == Sharing learned skills and knowledge == In Tellex's "Million Object Challenge", the goal is robots that learn how to spot and handle simple items and upload their data to the cloud to allow other robots to analyze and use the information. RoboBrain is a knowledge engine for robots which can be freely accessed by any device wishing to carry out a task. The database gathers new information about tasks as robots perform them, by searching the Internet, interpreting natural language text, images, and videos, object recognition as well as interaction. The project is led by Ashutosh Saxena at Stanford University. RoboEarth is a project that has been described as a "World Wide Web for robots" − it is a network and database repository where robots can share information and learn from each other and a cloud for outsourcing heavy computation tasks. The project brings together researchers from five major universities in Germany, the Netherlands and Spain and is backed by the European Union. Google Research, DeepMind, and Google X have decided to allow their robots share their experiences. == Vision-language-action model == Research groups and companies are developing vision-language-action models, foundation models that allow robotic control through the combination of vision and language. Google DeepMind, Figure AI and Hugging Face are actively working on that.

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  Kleene's algorithm

  In theoretical computer science, in particular in formal language theory, Kleene's algorithm transforms a given nondeterministic finite automaton (NFA) into a regular expression. Together with other conversion algorithms, it establishes the equivalence of several description formats for regular languages. Alternative presentations of the same method include the "elimination method" attributed to Brzozowski and McCluskey, the algorithm of McNaughton and Yamada, and the use of Arden's lemma. == Algorithm description == According to Gross and Yellen (2004), the algorithm can be traced back to Kleene (1956). A presentation of the algorithm in the case of deterministic finite automata (DFAs) is given in Hopcroft and Ullman (1979). The presentation of the algorithm for NFAs below follows Gross and Yellen (2004). Given a nondeterministic finite automaton M = (Q, Σ, δ, q0, F), with Q = { q0,...,qn } its set of states, the algorithm computes the sets Rkij of all strings that take M from state qi to qj without going through any state numbered higher than k. Here, "going through a state" means entering and leaving it, so both i and j may be higher than k, but no intermediate state may. Each set Rkij is represented by a regular expression; the algorithm computes them step by step for k = -1, 0, ..., n. Since there is no state numbered higher than n, the regular expression Rn0j represents the set of all strings that take M from its start state q0 to qj. If F = { q1,...,qf } is the set of accept states, the regular expression Rn01 | ... | Rn0f represents the language accepted by M. The initial regular expressions, for k = -1, are computed as follows for i≠j: R−1ij = a1 | ... | am where qj ∈ δ(qi,a1), ..., qj ∈ δ(qi,am) and as follows for i=j: R−1ii = a1 | ... | am | ε where qi ∈ δ(qi,a1), ..., qi ∈ δ(qi,am) In other words, R−1ij mentions all letters that label a transition from i to j, and we also include ε in the case where i=j. After that, in each step the expressions Rkij are computed from the previous ones by Rkij = Rk-1ik (Rk-1kk) Rk-1kj | Rk-1ij Another way to understand the operation of the algorithm is as an "elimination method", where the states from 0 to n are successively removed: when state k is removed, the regular expression Rk-1ij, which describes the words that label a path from state i>k to state j>k, is rewritten into Rkij so as to take into account the possibility of going via the "eliminated" state k. By induction on k, it can be shown that the length of each expression Rkij is at most ⁠1/3⁠(4k+1(6s+7) - 4) symbols, where s denotes the number of characters in Σ. Therefore, the length of the regular expression representing the language accepted by M is at most ⁠1/3⁠(4n+1(6s+7)f - f - 3) symbols, where f denotes the number of final states. This exponential blowup is inevitable, because there exist families of DFAs for which any equivalent regular expression must be of exponential size. In practice, the size of the regular expression obtained by running the algorithm can be very different depending on the order in which the states are considered by the procedure, i.e., the order in which they are numbered from 0 to n. == Example == The automaton shown in the picture can be described as M = (Q, Σ, δ, q0, F) with the set of states Q = { q0, q1, q2 }, the input alphabet Σ = { a, b }, the transition function δ with δ(q0,a)=q0, δ(q0,b)=q1, δ(q1,a)=q2, δ(q1,b)=q1, δ(q2,a)=q1, and δ(q2,b)=q1, the start state q0, and set of accept states F = { q1 }. Kleene's algorithm computes the initial regular expressions as After that, the Rkij are computed from the Rk-1ij step by step for k = 0, 1, 2. Kleene algebra equalities are used to simplify the regular expressions as much as possible. Step 0 Step 1 Step 2 Since q0 is the start state and q1 is the only accept state, the regular expression R201 denotes the set of all strings accepted by the automaton.

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  Car–Parrinello molecular dynamics

  Car–Parrinello molecular dynamics (CPMD) refers to either a method used in molecular dynamics (also known as the Car–Parrinello method) or the computational chemistry software package used to implement this method. The CPMD method is one of the major methods for calculating ab initio molecular dynamics (ab initio MD or AIMD). Ab initio molecular dynamics (AIMD) is a computational method that uses first principles through quantum mechanics to simulate the motion of atoms in a system. It is a type of molecular dynamics (MD) simulation that does not rely on empirical potentials or force fields to describe the interactions between atoms, but rather calculates these interactions entirely from the electronic structure of the system using quantum mechanics. In an ab initio MD simulation, the total energy of the system is calculated at each time step using density functional theory (DFT), Hartree-Fock (HF), or other electronic structure calculation methods. The forces acting on each atom are then determined from the gradient of the energy with respect to the atomic coordinates, and the equations of motion are solved to predict the trajectory of the atoms. AIMD permits chemical bond breaking and forming events to occur and accounts for electronic polarization effect. Therefore, Ab initio MD simulations can be used to study a wide range of phenomena, including the structural, thermodynamic, and dynamic properties of materials and chemical reactions. They are particularly useful for systems that are not well described by empirical potentials or force fields, such as systems with strong electronic correlation or systems with many degrees of freedom. However, ab initio MD simulations are computationally demanding and require significant computational resources. The CPMD method is related to the more common Born–Oppenheimer molecular dynamics (BOMD) method in that the quantum mechanical effect of the electrons is included in the calculation of energy and forces for the classical motion of the nuclei. CPMD and BOMD are different types of AIMD. However, whereas BOMD treats the electronic structure problem within the time-independent Schrödinger equation, CPMD explicitly includes the electrons as active degrees of freedom, via (fictitious) dynamical variables. The software is a parallelized plane wave / pseudopotential implementation of density functional theory, particularly designed for ab initio molecular dynamics. == Car–Parrinello method == The Car–Parrinello method is a type of molecular dynamics, usually employing periodic boundary conditions, planewave basis sets, and density functional theory, proposed by Roberto Car and Michele Parrinello in 1985 while working at SISSA, who were subsequently awarded the Dirac Medal by ICTP in 2009. In contrast to Born–Oppenheimer molecular dynamics wherein the nuclear (ions) degree of freedom are propagated using ionic forces which are calculated at each iteration by approximately solving the electronic problem with conventional matrix diagonalization methods, the Car–Parrinello method explicitly introduces the electronic degrees of freedom as (fictitious) dynamical variables, writing an extended Lagrangian for the system which leads to a system of coupled equations of motion for both ions and electrons. In this way, an explicit electronic minimization at each time step, as done in Born–Oppenheimer MD, is not needed: after an initial standard electronic minimization, the fictitious dynamics of the electrons keeps them on the electronic ground state corresponding to each new ionic configuration visited along the dynamics, thus yielding accurate ionic forces. In order to maintain this adiabaticity condition, it is necessary that the fictitious mass of the electrons is chosen small enough to avoid a significant energy transfer from the ionic to the electronic degrees of freedom. This small fictitious mass in turn requires that the equations of motion are integrated using a smaller time step than the one (1–10 fs) commonly used in Born–Oppenheimer molecular dynamics. Currently, the CPMD method can be applied to systems that consist of a few tens or hundreds of atoms and access timescales on the order of tens of picoseconds. == General approach == In CPMD the core electrons are usually described by a pseudopotential and the wavefunction of the valence electrons are approximated by a plane wave basis set. The ground state electronic density (for fixed nuclei) is calculated self-consistently, usually using the density functional theory method. Kohn-Sham equations are often used to calculate the electronic structure, where electronic orbitals are expanded in a plane-wave basis set. Then, using that density, forces on the nuclei can be computed, to update the trajectories (using, e.g. the Verlet integration algorithm). In addition, however, the coefficients used to obtain the electronic orbital functions can be treated as a set of extra spatial dimensions, and trajectories for the orbitals can be calculated in this context. == Fictitious dynamics == CPMD is an approximation of the Born–Oppenheimer MD (BOMD) method. In BOMD, the electrons' wave function must be minimized via matrix diagonalization at every step in the trajectory. CPMD uses fictitious dynamics to keep the electrons close to the ground state, preventing the need for a costly self-consistent iterative minimization at each time step. The fictitious dynamics relies on the use of a fictitious electron mass (usually in the range of 400 – 800 a.u.) to ensure that there is very little energy transfer from nuclei to electrons, i.e. to ensure adiabaticity. Any increase in the fictitious electron mass resulting in energy transfer would cause the system to leave the ground-state BOMD surface. === Lagrangian === L = 1 2 ( ∑ I n u c l e i M I R ˙ I 2 + μ ∑ i o r b i t a l s ∫ d r | ψ ˙ i ( r , t ) | 2 ) − E [ { ψ i } , { R I } ] + ∑ i j Λ i j ( ∫ d r ψ i ψ j − δ i j ) , {\displaystyle {\mathcal {L}}={\frac {1}{2}}\left(\sum _{I}^{\mathrm {nuclei} }\ M_{I}{\dot {\mathbf {R} }}_{I}^{2}+\mu \sum _{i}^{\mathrm {orbitals} }\int d\mathbf {r} \ |{\dot {\psi }}_{i}(\mathbf {r} ,t)|^{2}\right)-E\left[\{\psi _{i}\},\{\mathbf {R} _{I}\}\right]+\sum _{ij}\Lambda _{ij}\left(\int d\mathbf {r} \ \psi _{i}\psi _{j}-\delta _{ij}\right),} where μ {\displaystyle \mu } is the fictitious mass parameter; E[{ψi},{RI}] is the Kohn–Sham energy density functional, which outputs energy values when given Kohn–Sham orbitals and nuclear positions. === Orthogonality constraint === ∫ d r ψ i ∗ ( r , t ) ψ j ( r , t ) = δ i j , {\displaystyle \int d\mathbf {r} \ \psi _{i}^{}(\mathbf {r} ,t)\psi _{j}(\mathbf {r} ,t)=\delta _{ij},} where δij is the Kronecker delta. === Equations of motion === The equations of motion are obtained by finding the stationary point of the Lagrangian under variations of ψi and RI, with the orthogonality constraint. M I R ¨ I = − ∇ I E [ { ψ i } , { R I } ] {\displaystyle M_{I}{\ddot {\mathbf {R} }}_{I}=-\nabla _{I}\,E\left[\{\psi _{i}\},\{\mathbf {R} _{I}\}\right]} μ ψ ¨ i ( r , t ) = − δ E δ ψ i ∗ ( r , t ) + ∑ j Λ i j ψ j ( r , t ) , {\displaystyle \mu {\ddot {\psi }}_{i}(\mathbf {r} ,t)=-{\frac {\delta E}{\delta \psi _{i}^{}(\mathbf {r} ,t)}}+\sum _{j}\Lambda _{ij}\psi _{j}(\mathbf {r} ,t),} where Λij is a Lagrangian multiplier matrix to comply with the orthonormality constraint. === Born–Oppenheimer limit === In the formal limit where μ → 0, the equations of motion approach Born–Oppenheimer molecular dynamics. == Software packages == There are a number of software packages available for performing AIMD simulations. Some of the most widely used packages include: CP2K: an open-source software package for AIMD. Quantum Espresso: an open-source package for performing DFT calculations. It includes a module for AIMD. VASP: a commercial software package for performing DFT calculations. It includes a module for AIMD. Gaussian: a commercial software package that can perform AIMD. NWChem: an open-source software package for AIMD. LAMMPS: an open-source software package for performing classical and ab initio MD simulations. SIESTA: an open-source software package for AIMD. ORCA: a general-purpose quantum chemistry package. == Applications == Studying the behavior of water across different environments, such as near a hydrophobic graphene sheet. Investigating the structure and dynamics of liquid water at ambient temperature. Solving the heat transfer problems (heat conduction and thermal radiation), such as in Si/Ge superlattices. Probing the proton transfer along hydrogen-bonds in different environments, such as in 1D water chains inside carbon nanotubes. Evaluating the critical point of crystals, composites, and solid-state materials, such as aluminum. Predicting and modelling different phases and phase transitions, such as in the amorphous phase of the phase-change memory material GeSbTe. Studying the combustion of combustibles, such as lignite-water systems. Measuring th

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  Shapiro–Senapathy algorithm

  The Shapiro—Senapathy algorithm (S&S) is a computational method for identifying splice sites in eukaryotic genes. The algorithm employs a Position Weight Matrix (PWM) scoring formula to predict donor and acceptor splice sites in any given gene. This methodology has been used to discover splice sites and disease-causing splice site mutations in the human genome, and has become a standard tool in clinical genomics. The S&S algorithm has been cited in thousands of clinical studies, according to Google Scholar. It has also formed the basis of widely used software, including Human Splicing Finder, SROOGLE, and Alamut, which identify splice sites and splice site mutations that cause disease. The algorithm has uncovered splicing mutations in diseases ranging from cancers to inherited disorders, and predicted the deleterious effects of these mutations including exon skipping, intron retention, and cryptic splice site activation. == The algorithm == A splice site defines the boundary between a coding exon and a non-coding intron in eukaryotic genes. The S&S algorithm employs a sliding window, corresponding to the length of the splice site motif, to scan a gene sequence and detect potential splice sites. For each sliding window, the algorithm calculates a score by comparing the nucleotide sequence to a Position Weight Matrix (PWM) derived from known splice sites. This formula generates a percentile score, indicating the likelihood that a given sequence functions as a donor or acceptor splice site. The majority of disease-causing mutations in the human genome are located in splice sites. Clinical genomics studies analyze the splice site scores generated by the S&S algorithm to predict the consequences of splice site mutations including exon skipping and intron retention. The algorithm's sensitivity to single-nucleotide changes allows it to determine mutations that may impact RNA splicing and contribute to disease. In addition to identifying real splice sites, the S&S algorithm has been used to discover cryptic splice sites — alternative splice sites activated by mutations — which may disrupt normal splicing. The algorithm detects mutations that lead to the activation of cryptic splice sites, which may be located proximal to real splice sites or deep within non-coding introns. It has thus been used to determine the causes of numerous diseases that are due to cryptic splicing. == Cancer gene discovery using S&S == The S&S algorithm has been used to identify splice-site mutations in genes associated with several cancers. For example, genes causing commonly occurring cancers including breast cancer, ovarian cancer, colorectal cancer, leukemia, head and neck cancers, prostate cancer, retinoblastoma, squamous cell carcinoma, gastrointestinal cancer, melanoma, liver cancer, Lynch syndrome, skin cancer, and neurofibromatosis have been found. In addition, splicing mutations in genes causing less commonly known cancers including gastric cancer, gangliogliomas, Li-Fraumeni syndrome, Loeys–Dietz syndrome, Osteochondromas (bone tumor), Nevoid basal cell carcinoma syndrome, and Pheochromocytomas have been identified. Specific mutations in different splice sites in various genes causing breast cancer (e.g., BRCA1, PALB2), ovarian cancer (e.g., SLC9A3R1, COL7A1, HSD17B7), colon cancer (e.g., APC, MLH1, DPYD), colorectal cancer (e.g., COL3A1, APC, HLA-A), skin cancer (e.g., COL17A1, XPA, POLH), and Fanconi anemia (e.g., FANC, FANA) have been uncovered. The mutations in the donor and acceptor splice sites in different genes causing a variety of cancers that have been identified by S&S are shown in Table 1. == Discovery of genes causing inherited disorders using S&S == Specific mutations in different splice sites in various genes that cause inherited disorders, including, for example, Type 1 diabetes (e.g., PTPN22, TCF1 (HCF-1A)), hypertension (e.g., LDL, LDLR, LPL), Marfan syndrome (e.g., FBN1, TGFBR2, FBN2), cardiac diseases (e.g., COL1A2, MYBPC3, ACTC1), eye disorders (e.g., EVC, VSX1) have been uncovered. A few example mutations in the donor and acceptor splice sites in different genes causing a variety of inherited disorders identified using S&S are shown in Table 2. == Genes causing immune system disorders == More than 100 immune system disorders affect humans, including inflammatory bowel diseases, multiple sclerosis, systemic lupus erythematosus, bloom syndrome, familial cold autoinflammatory syndrome, and dyskeratosis congenita. The Shapiro–Senapathy algorithm has been used to discover genes and mutations involved in many immune disorder diseases, including Ataxia telangiectasia, B-cell defects, epidermolysis bullosa, and X-linked agammaglobulinemia. Xeroderma pigmentosum, an autosomal recessive disorder is caused by faulty proteins formed due to new preferred splice donor site identified using S&S algorithm and resulted in defective nucleotide excision repair. Type I Bartter syndrome (BS) is caused by mutations in the gene SLC12A1. S&S algorithm helped in disclosing the presence of two novel heterozygous mutations c.724 + 4A > G in intron 5 and c.2095delG in intron 16 leading to complete exon 5 skipping. Mutations in the MYH gene, which is responsible for removing the oxidatively damaged DNA lesion are cancer-susceptible in the individuals. The IVS1+5C plays a causative role in the activation of a cryptic splice donor site and the alternative splicing in intron 1, S&S algorithm shows, guanine (G) at the position of IVS+5 is well conserved (at the frequency of 84%) among primates. This also supported the fact that the G/C SNP in the conserved splice junction of the MYH gene causes the alternative splicing of intron 1 of the β type transcript. Splice site scores were calculated according to S&S to find EBV infection in X-linked lymphoproliferative disease. Identification of Familial tumoral calcinosis (FTC) is an autosomal recessive disorder characterized by ectopic calcifications and elevated serum phosphate levels and it is because of aberrant splicing. == Application of S&S in hospitals for clinical practice and research == The Shapiro–Senapathy (S&S) algorithm has played a significant role in advancing the diagnosis and treatment of human diseases through its application in modern clinical genomics. With the widespread adoption of next-generation sequencing (NGS) technologies, the S&S algorithm is now routinely integrated into clinical practice by geneticists and diagnostic laboratories. It is implemented in various computational tools such as Human Splicing Finder (HSF), Splice Site Finder (SSF), and Alamut Visual, which assist in interpreting the functional impact of genetic variants on RNA splicing. The algorithm is particularly useful in identifying pathogenic splice site mutations in cases where the clinical presentation is unclear or where conventional diagnostic methods have failed to identify a causative gene. Its utility has been demonstrated across diverse patient cohorts, including individuals from different ethnic backgrounds with various cancers and inherited genetic disorders. The following are selected examples illustrating its application in clinical research. === Cancers === === Inherited disorders === == S&S - Algorithm for identifying splice sites, exons and split genes == The Shapiro–Senapathy algorithm (SSA) was developed to identify splice sites in uncharacterized genomic sequences, with early applications in the Human Genome Project. The method introduced a Position Weight Matrix (PWM)-based approach to analyze splicing sequences across eukaryotic organisms, marking the first computational framework to systematically define splice sites using probabilistic scoring. Key innovations of the algorithm included: Exon Detection – Exons were defined as sequences bounded by acceptor and donor splice sites with S&S scores above a threshold, requiring an open reading frame (ORF) for validation. Gene Prediction – The method enabled the identification of complete genes by assembling predicted exons, forming a basis for later gene-finding tools. Mutation Analysis – The algorithm distinguishes deleterious splice-site mutations (which disrupt protein function by lowering S&S scores) from neutral variations. This capability allowed researchers to study disease-linked cryptic splice sites in humans, animals, and plants. SSA's PWM-based framework influenced subsequent computational methods, including machine learning and neural network approaches, for splice-site prediction and alternative splicing research. It remains a foundational tool in genomics and disease studies. == Discovering the mechanisms of aberrant splicing in diseases == The Shapiro–Senapathy algorithm has been used to determine the various aberrant splicing mechanisms in genes due to deleterious mutations in the splice sites, which cause numerous diseases. Deleterious splice site mutations impair the normal splicing of the gene transcripts, and thereby make the encoded protei

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  Shearlet

  In applied mathematical analysis, shearlets are a multiscale framework which allows efficient encoding of anisotropic features in multivariate problem classes. Originally, shearlets were introduced in 2006 for the analysis and sparse approximation of functions f ∈ L 2 ( R 2 ) {\displaystyle f\in L^{2}(\mathbb {R} ^{2})} . They are a natural extension of wavelets, to accommodate the fact that multivariate functions are typically governed by anisotropic features such as edges in images, since wavelets, as isotropic objects, are not capable of capturing such phenomena. Shearlets are constructed by parabolic scaling, shearing, and translation applied to a few generating functions. At fine scales, they are essentially supported within skinny and directional ridges following the parabolic scaling law, which reads length² ≈ width. Similar to wavelets, shearlets arise from the affine group and allow a unified treatment of the continuum and digital situation leading to faithful implementations. Although they do not constitute an orthonormal basis for L 2 ( R 2 ) {\displaystyle L^{2}(\mathbb {R} ^{2})} , they still form a frame allowing stable expansions of arbitrary functions f ∈ L 2 ( R 2 ) {\displaystyle f\in L^{2}(\mathbb {R} ^{2})} . One of the most important properties of shearlets is their ability to provide optimally sparse approximations (in the sense of optimality in ) for cartoon-like functions f {\displaystyle f} . In imaging sciences, cartoon-like functions serve as a model for anisotropic features and are compactly supported in [ 0 , 1 ] 2 {\displaystyle [0,1]^{2}} while being C 2 {\displaystyle C^{2}} apart from a closed piecewise C 2 {\displaystyle C^{2}} singularity curve with bounded curvature. The decay rate of the L 2 {\displaystyle L^{2}} -error of the N {\displaystyle N} -term shearlet approximation obtained by taking the N {\displaystyle N} largest coefficients from the shearlet expansion is in fact optimal up to a log-factor: ‖ f − f N ‖ L 2 2 ≤ C N − 2 ( log ⁡ N ) 3 , N → ∞ , {\displaystyle \|f-f_{N}\|_{L^{2}}^{2}\leq CN^{-2}(\log N)^{3},\quad N\to \infty ,} where the constant C {\displaystyle C} depends only on the maximum curvature of the singularity curve and the maximum magnitudes of f {\displaystyle f} , f ′ {\displaystyle f'} and f ″ . {\displaystyle f''.} This approximation rate significantly improves the best N {\displaystyle N} -term approximation rate of wavelets providing only O ( N − 1 ) {\displaystyle O(N^{-1})} for such class of functions. Shearlets are to date the only directional representation system that provides sparse approximation of anisotropic features while providing a unified treatment of the continuum and digital realm that allows faithful implementation. Extensions of shearlet systems to L 2 ( R d ) , d ≥ 2 {\displaystyle L^{2}(\mathbb {R} ^{d}),d\geq 2} are also available. A comprehensive presentation of the theory and applications of shearlets can be found in. == Definition == === Continuous shearlet systems === The construction of continuous shearlet systems is based on parabolic scaling matrices A a = [ a 0 0 a 1 / 2 ] , a > 0 {\displaystyle A_{a}={\begin{bmatrix}a&0\\0&a^{1/2}\end{bmatrix}},\quad a>0} as a means to change the resolution, on shear matrices S s = [ 1 s 0 1 ] , s ∈ R {\displaystyle S_{s}={\begin{bmatrix}1&s\\0&1\end{bmatrix}},\quad s\in \mathbb {R} } as a means to change the orientation, and finally on translations to change the positioning. In comparison to curvelets, shearlets use shearings instead of rotations, the advantage being that the shear operator S s {\displaystyle S_{s}} leaves the integer lattice invariant in case s ∈ Z {\displaystyle s\in \mathbb {Z} } , i.e., S s Z 2 ⊆ Z 2 . {\displaystyle S_{s}\mathbb {Z} ^{2}\subseteq \mathbb {Z} ^{2}.} This indeed allows a unified treatment of the continuum and digital realm, thereby guaranteeing a faithful digital implementation. For ψ ∈ L 2 ( R 2 ) {\displaystyle \psi \in L^{2}(\mathbb {R} ^{2})} the continuous shearlet system generated by ψ {\displaystyle \psi } is then defined as SH c o n t ⁡ ( ψ ) = { ψ a , s , t = a 3 / 4 ψ ( S s A a ( ⋅ − t ) ) ∣ a > 0 , s ∈ R , t ∈ R 2 } , {\displaystyle \operatorname {SH} _{\mathrm {cont} }(\psi )=\{\psi _{a,s,t}=a^{3/4}\psi (S_{s}A_{a}(\cdot -t))\mid a>0,s\in \mathbb {R} ,t\in \mathbb {R} ^{2}\},} and the corresponding continuous shearlet transform is given by the map f ↦ S H ψ f ( a , s , t ) = ⟨ f , ψ a , s , t ⟩ , f ∈ L 2 ( R 2 ) , ( a , s , t ) ∈ R > 0 × R × R 2 . {\displaystyle f\mapsto {\mathcal {SH}}_{\psi }f(a,s,t)=\langle f,\psi _{a,s,t}\rangle ,\quad f\in L^{2}(\mathbb {R} ^{2}),\quad (a,s,t)\in \mathbb {R} _{>0}\times \mathbb {R} \times \mathbb {R} ^{2}.} === Discrete shearlet systems === A discrete version of shearlet systems can be directly obtained from SH c o n t ⁡ ( ψ ) {\displaystyle \operatorname {SH} _{\mathrm {cont} }(\psi )} by discretizing the parameter set R > 0 × R × R 2 . {\displaystyle \mathbb {R} _{>0}\times \mathbb {R} \times \mathbb {R} ^{2}.} There are numerous approaches for this but the most popular one is given by { ( 2 j , k , A 2 j − 1 S k − 1 m ) ∣ j ∈ Z , k ∈ Z , m ∈ Z 2 } ⊆ R > 0 × R × R 2 . {\displaystyle \{(2^{j},k,A_{2^{j}}^{-1}S_{k}^{-1}m)\mid j\in \mathbb {Z} ,k\in \mathbb {Z} ,m\in \mathbb {Z} ^{2}\}\subseteq \mathbb {R} _{>0}\times \mathbb {R} \times \mathbb {R} ^{2}.} From this, the discrete shearlet system associated with the shearlet generator ψ {\displaystyle \psi } is defined by SH ⁡ ( ψ ) = { ψ j , k , m = 2 3 j / 4 ψ ( S k A 2 j ⋅ − m ) ∣ j ∈ Z , k ∈ Z , m ∈ Z 2 } , {\displaystyle \operatorname {SH} (\psi )=\{\psi _{j,k,m}=2^{3j/4}\psi (S_{k}A_{2^{j}}\cdot {}-m)\mid j\in \mathbb {Z} ,k\in \mathbb {Z} ,m\in \mathbb {Z} ^{2}\},} and the associated discrete shearlet transform is defined by f ↦ S H ψ f ( j , k , m ) = ⟨ f , ψ j , k , m ⟩ , f ∈ L 2 ( R 2 ) , ( j , k , m ) ∈ Z × Z × Z 2 . {\displaystyle f\mapsto {\mathcal {SH}}_{\psi }f(j,k,m)=\langle f,\psi _{j,k,m}\rangle ,\quad f\in L^{2}(\mathbb {R} ^{2}),\quad (j,k,m)\in \mathbb {Z} \times \mathbb {Z} \times \mathbb {Z} ^{2}.} == Examples == Let ψ 1 ∈ L 2 ( R ) {\displaystyle \psi _{1}\in L^{2}(\mathbb {R} )} be a function satisfying the discrete Calderón condition, i.e., ∑ j ∈ Z | ψ ^ 1 ( 2 − j ξ ) | 2 = 1 , for a.e. ξ ∈ R , {\displaystyle \sum _{j\in \mathbb {Z} }|{\hat {\psi }}_{1}(2^{-j}\xi )|^{2}=1,{\text{for a.e. }}\xi \in \mathbb {R} ,} with ψ ^ 1 ∈ C ∞ ( R ) {\displaystyle {\hat {\psi }}_{1}\in C^{\infty }(\mathbb {R} )} and supp ⁡ ψ ^ 1 ⊆ [ − 1 2 , − 1 16 ] ∪ [ 1 16 , 1 2 ] , {\displaystyle \operatorname {supp} {\hat {\psi }}_{1}\subseteq [-{\tfrac {1}{2}},-{\tfrac {1}{16}}]\cup [{\tfrac {1}{16}},{\tfrac {1}{2}}],} where ψ ^ 1 {\displaystyle {\hat {\psi }}_{1}} denotes the Fourier transform of ψ 1 . {\displaystyle \psi _{1}.} For instance, one can choose ψ 1 {\displaystyle \psi _{1}} to be a Meyer wavelet. Furthermore, let ψ 2 ∈ L 2 ( R ) {\displaystyle \psi _{2}\in L^{2}(\mathbb {R} )} be such that ψ ^ 2 ∈ C ∞ ( R ) , {\displaystyle {\hat {\psi }}_{2}\in C^{\infty }(\mathbb {R} ),} supp ⁡ ψ ^ 2 ⊆ [ − 1 , 1 ] {\displaystyle \operatorname {supp} {\hat {\psi }}_{2}\subseteq [-1,1]} and ∑ k = − 1 1 | ψ ^ 2 ( ξ + k ) | 2 = 1 , for a.e. ξ ∈ [ − 1 , 1 ] . {\displaystyle \sum _{k=-1}^{1}|{\hat {\psi }}_{2}(\xi +k)|^{2}=1,{\text{for a.e. }}\xi \in \left[-1,1\right].} One typically chooses ψ ^ 2 {\displaystyle {\hat {\psi }}_{2}} to be a smooth bump function. Then ψ ∈ L 2 ( R 2 ) {\displaystyle \psi \in L^{2}(\mathbb {R} ^{2})} given by ψ ^ ( ξ ) = ψ ^ 1 ( ξ 1 ) ψ ^ 2 ( ξ 2 ξ 1 ) , ξ = ( ξ 1 , ξ 2 ) ∈ R 2 , {\displaystyle {\hat {\psi }}(\xi )={\hat {\psi }}_{1}(\xi _{1}){\hat {\psi }}_{2}\left({\tfrac {\xi _{2}}{\xi _{1}}}\right),\quad \xi =(\xi _{1},\xi _{2})\in \mathbb {R} ^{2},} is called a classical shearlet. It can be shown that the corresponding discrete shearlet system SH ⁡ ( ψ ) {\displaystyle \operatorname {SH} (\psi )} constitutes a Parseval frame for L 2 ( R 2 ) {\displaystyle L^{2}(\mathbb {R} ^{2})} consisting of bandlimited functions. Another example are compactly supported shearlet systems, where a compactly supported function ψ ∈ L 2 ( R 2 ) {\displaystyle \psi \in L^{2}(\mathbb {R} ^{2})} can be chosen so that SH ⁡ ( ψ ) {\displaystyle \operatorname {SH} (\psi )} forms a frame for L 2 ( R 2 ) {\displaystyle L^{2}(\mathbb {R} ^{2})} . In this case, all shearlet elements in SH ⁡ ( ψ ) {\displaystyle \operatorname {SH} (\psi )} are compactly supported providing superior spatial localization compared to the classical shearlets, which are bandlimited. Although a compactly supported shearlet system does not generally form a Parseval frame, any function f ∈ L 2 ( R 2 ) {\displaystyle f\in L^{2}(\mathbb {R} ^{2})} can be represented by the shearlet expansion due to its frame property. == Cone-adapted shearlets == One drawback of shearlets defined as above is the directional bias of shearlet elements associated with large shearing parameters. This effect is already r

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  Algorithms and Combinatorics

  Algorithms and Combinatorics (ISSN 0937-5511) is a book series in mathematics, and particularly in combinatorics and the design and analysis of algorithms. It is published by Springer Science+Business Media, and was founded in 1987. == Books == The books published in this series include: The Simplex Method: A Probabilistic Analysis (Karl Heinz Borgwardt, 1987, vol. 1) Geometric Algorithms and Combinatorial Optimization (Martin Grötschel, László Lovász, and Alexander Schrijver, 1988, vol. 2; 2nd ed., 1993) Systems Analysis by Graphs and Matroids (Kazuo Murota, 1987, vol. 3) Greedoids (Bernhard Korte, László Lovász, and Rainer Schrader, 1991, vol. 4) Mathematics of Ramsey Theory (Jaroslav Nešetřil and Vojtěch Rödl, eds., 1990, vol. 5) Matroid Theory and its Applications in Electric Network Theory and in Statics (Andras Recszki, 1989, vol. 6) Irregularities of Partitions: Papers from the meeting held in Fertőd, July 7–11, 1986 (Gábor Halász and Vera T. Sós, eds., 1989, vol. 8) Paths, Flows, and VLSI-Layout: Papers from the meeting held at the University of Bonn, Bonn, June 20–July 1, 1988 (Bernhard Korte, László Lovász, Hans Jürgen Prömel, and Alexander Schrijver, eds., 1990, vol. 9) New Trends in Discrete and Computational Geometry (János Pach, ed., 1993, vol. 10) Discrete Images, Objects, and Functions in Z n {\displaystyle \mathbb {Z} ^{n}} (Klaus Voss, 1993, vol. 11) Linear Optimization and Extensions (Manfred Padberg, 1999, vol. 12) The Mathematics of Paul Erdős I (Ronald Graham and Jaroslav Nešetřil, eds., 1997, vol. 13) The Mathematics of Paul Erdős II (Ronald Graham and Jaroslav Nešetřil, eds., 1997, vol. 14) Geometry of Cuts and Metrics (Michel Deza and Monique Laurent, 1997, vol. 15) Probabilistic Methods for Algorithmic Discrete Mathematics (M. Habib, C. McDiarmid, J. Ramirez-Alfonsin, and B. Reed, 1998, vol. 16) Modern Cryptography, Probabilistic Proofs and Pseudorandomness (Oded Goldreich, 1999, vol. 17) Geometric Discrepancy: An Illustrated Guide (Jiří Matoušek, 1999, vol. 18) Applied Finite Group Actions (Adalbert Kerber, 1999, vol. 19) Matrices and Matroids for Systems Analysis (Kazuo Murota, 2000, vol. 20; corrected ed., 2010) Combinatorial Optimization (Bernhard Korte and Jens Vygen, 2000, vol. 21; 5th ed., 2012) The Strange Logic of Random Graphs (Joel Spencer, 2001, vol. 22) Graph Colouring and the Probabilistic Method (Michael Molloy and Bruce Reed, 2002, Vol. 23) Combinatorial Optimization: Polyhedra and Efficiency (Alexander Schrijver, 2003, vol. 24. In three volumes: A. Paths, flows, matchings; B. Matroids, trees, stable sets; C. Disjoint paths, hypergraphs) Discrete and Computational Geometry: The Goodman-Pollack Festschrift (B. Aronov, S. Basu, J. Pach, and M. Sharir, eds., 2003, vol. 25) Topics in Discrete Mathematics: Dedicated to Jarik Nešetril on the Occasion of his 60th birthday (M. Klazar, J. Kratochvíl, M. Loebl, J. Matoušek, R. Thomas, and P. Valtr, eds., 2006, vol. 26) Boolean Function Complexity: Advances and Frontiers (Stasys Jukna, 2012, Vol. 27) Sparsity: Graphs, Structures, and Algorithms (Jaroslav Nešetřil and Patrice Ossona de Mendez, 2012, vol. 28) Optimal Interconnection Trees in the Plane (Marcus Brazil and Martin Zachariasen, 2015, vol. 29) Combinatorics and Complexity of Partition Functions (Alexander Barvinok, 2016, vol. 30)

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  Information scientist

  The term information scientist developed in the latter part of the twentieth century by Wm. Hovey Smith to describe an individual, usually with a relevant subject degree (such as one in Information and Computer Science - CIS) or high level of subject knowledge, providing focused information to scientific and technical research staff in industry. It is a role quite distinct from and complementary to that of a librarian. Developments in end-user searching, together with some convergence between the roles of librarian and information scientist, have led to a diminution in its use in this context, and the term information officer or information professional (information specialist) are also now used. The term was, and is, also used for an individual carrying out research in information science. Brian C. Vickery mentions that the Institute of Information Scientists (IIS) was established in London during 1958 and lists the criteria put forward by this institute "Criteria for Information Science" (appendix 1) as well as his own "Areas of study in information science" (appendix 2). The IIS merged with the Library Association in 2002 to form the Chartered Institute of Library and Information Professionals (CILIP). == Notable Information Scientists == See also Award of Merit - Association for Information Science and Technology Marcia Bates David Blair (information technologist) Samuel C. Bradford Michael Buckland John M. Carroll Blaise Cronin Emilia Currás Brenda Dervin Eugene Garfield Paul B. Kantor Frederick Wilfrid Lancaster Calvin Mooers Tefko Saracevic Linda C. Smith Robert Saxton Taylor Brian Campbell Vickery Thomas D. Wilson == Additional reading == Ellis, David and Merete Haugan. (1997) "Modelling the information seeking patterns of engineers and research scientists in an industrial environment" (Journal of Documentation, Volume 53(4): pp. 384–403) Poole, Alex H. (2024). "'There's a big difference between going through life with the wind at your back, and going through life leaning into the wind': Feminism in Post-World War II Information Science". Proceedings of the Association for Information Science and Technology. 61: 300–313. doi:10.1002/pra2.1029. Vickery, Brian Campbell (1988) "Essays presented to B. C. Vickery" (Journal of Documentation, Volume 44, pp. 199–283). Vickery, B. & Vickery, A. (1987) Information Science in theory and practice (London: Bowker-Saur, pp. 361–369)

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  Informedia Digital Library

  The Informedia Digital Library is an ongoing research program at Carnegie Mellon University to build search engines and information visualization technology for many types of media. The program has carried out research on spoken document retrieval, video information retrieval, video segmentation, face recognition, and cross-language information retrieval. The Lycos search engine was an early product of the Informedia Digital Library Project. The project is led by Howard Wactlar. Researchers on the project have included: Michael Mauldin, Alex Hauptmann, Michael Christel, Michael Witbrock, Raj Reddy, Takeo Kanade and Scott Stevens.

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  Cost-sensitive machine learning

  Cost-sensitive machine learning is an approach within machine learning that considers varying costs associated with different types of errors. This method diverges from traditional approaches by introducing a cost matrix, explicitly specifying the penalties or benefits for each type of prediction error. The inherent difficulty which cost-sensitive machine learning tackles is that minimizing different kinds of classification errors is a multi-objective optimization problem. == Overview == Cost-sensitive machine learning optimizes models based on the specific consequences of misclassifications, making it a valuable tool in various applications. It is especially useful in problems with a high imbalance in class distribution and a high imbalance in associated costs Cost-sensitive machine learning introduces a scalar cost function in order to find one (of multiple) Pareto optimal points in this multi-objective optimization problem (similar to the Weighted sum model) == Cost Matrix == The cost matrix is a crucial element within cost-sensitive modeling, explicitly defining the costs or benefits associated with different prediction errors in classification tasks. Represented as a table, the matrix aligns true and predicted classes, assigning a cost value to each combination. For instance, in binary classification, it may distinguish costs for false positives and false negatives. The utility of the cost matrix lies in its application to calculate the expected cost or loss. The formula, expressed as a double summation, utilizes joint probabilities: Expected Loss = ∑ i ∑ j P ( Actual i , Predicted j ) ⋅ Cost Actual i , Predicted j {\displaystyle {\text{Expected Loss}}=\sum _{i}\sum _{j}P({\text{Actual}}_{i},{\text{Predicted}}_{j})\cdot {\text{Cost}}_{{\text{Actual}}_{i},{\text{Predicted}}_{j}}} Here, P ( Actual i , Predicted j ) {\displaystyle P({\text{Actual}}_{i},{\text{Predicted}}_{j})} denotes the joint probability of actual class i {\displaystyle i} and predicted class j {\displaystyle j} , providing a nuanced measure that considers both the probabilities and associated costs. This approach allows practitioners to fine-tune models based on the specific consequences of misclassifications, adapting to scenarios where the impact of prediction errors varies across classes. == Applications == === Fraud Detection === In the realm of data science, particularly in finance, cost-sensitive machine learning is applied to fraud detection. By assigning different costs to false positives and false negatives, models can be fine-tuned to minimize the overall financial impact of misclassifications. === Medical Diagnostics === In healthcare, cost-sensitive machine learning plays a role in medical diagnostics. The approach allows for customization of models based on the potential harm associated with misdiagnoses, ensuring a more patient-centric application of machine learning algorithms. == Challenges == A typical challenge in cost-sensitive machine learning is the reliable determination of the cost matrix which may evolve over time. == Literature == Cost-Sensitive Machine Learning. USA, CRC Press, 2011. ISBN 9781439839287 Abhishek, K., Abdelaziz, D. M. (2023). Machine Learning for Imbalanced Data: Tackle Imbalanced Datasets Using Machine Learning and Deep Learning Techniques. (n.p.): Packt Publishing. ISBN 9781801070881

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  Tertiary source

  A tertiary source is an index or textual consolidation of already published primary and secondary sources that does not provide additional interpretations or analysis of the sources. Some tertiary sources can be used as an aid to find key (seminal) sources, key terms, general common knowledge and established mainstream science on a topic. The exact definition of tertiary varies by academic field. Academic research standards generally do not accept tertiary sources such as encyclopedias as citations, although survey articles are frequently cited rather than the original publication. == Overlap with secondary sources == As is also the case with distinguishing primary and secondary sources in some disciplines, there is not always a clear distinguishing line between secondary and tertiary sources. Depending on the topic of research, a scholar may use a bibliography, dictionary, or encyclopedia as either a tertiary or a secondary source. This causes some difficulty in defining many sources as either one type or the other. In some academic disciplines, the differentiation between a secondary and tertiary source is relative. In the United Nations International Scientific Information System (UNISIST) model, a secondary source is a bibliography, whereas a tertiary source is a synthesis of primary sources. == Types of tertiary sources == Tertiary sources can come in book form or as an online resource. Tertiary sources in book form are frequently organised in alphabetical order, whereas an online tertiary source may be searchable by keyword. Examples of tertiary sources include; reference books, encyclopedias, dictionaries, some textbooks, abstracts, directories, factbooks, handbooks, manuals and compendia. Indexes, bibliographies, concordances, and databases are aggregates of primary and secondary sources and therefore often considered tertiary sources. They may also serve as a point of access to the full or partial text of primary and secondary sources. Almanacs, travel guides, field guides, and timelines are also examples of tertiary sources. Tertiary sources attempt to summarize, collect, and consolidate the source materials into an overview without adding analysis and synthesis of new conclusions. Wikipedia is a tertiary source.

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  Explore-then-commit algorithm

  Explore Then Commit (ETC) is an algorithm for the multi-armed bandit problem foc,used on finding the best trade-off between exploration and exploitation. == Multi-armed bandit problem == The multi-armed bandit problem is a sequential game where one player has to choose at each turn between K {\displaystyle K} actions (arms). Behind every arm a {\displaystyle a} is an unknown distribution ν a {\displaystyle \nu _{a}} that lies in a set D {\displaystyle {\mathcal {D}}} known by the player (for example, D {\displaystyle {\mathcal {D}}} can be the set of Gaussian distributions or Bernoulli distributions). At each turn t {\displaystyle t} the player chooses (pulls) an arm a t {\displaystyle a_{t}} , they then get an observation X t {\displaystyle X_{t}} of the distribution ν a t {\displaystyle \nu _{a_{t}}} . === Regret minimization === The goal is to minimize the regret at time T {\displaystyle T} that is defined as R T := ∑ a = 1 K Δ a E [ N a ( T ) ] {\displaystyle R_{T}:=\sum _{a=1}^{K}\Delta _{a}\mathbb {E} [N_{a}(T)]} where μ a := E [ ν a ] {\displaystyle \mu _{a}:=\mathbb {E} [\nu _{a}]} is the mean of arm a {\displaystyle a} μ ∗ := max a μ a {\displaystyle \mu ^{}:=\max _{a}\mu _{a}} is the highest mean Δ a := μ ∗ − μ a {\displaystyle \Delta _{a}:=\mu ^{}-\mu _{a}} N a ( t ) {\displaystyle N_{a}(t)} is the number of pulls of arm a {\displaystyle a} up to turn t {\displaystyle t} The player has to find an algorithm that chooses at each turn t {\displaystyle t} which arm to pull based on the previous actions and observations ( a s , X s ) s < t {\displaystyle (a_{s},X_{s})_{s Read more →