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Outline of the Python programming language

The following outline is provided as an overview of and topical guide to Python: Python is a general-purpose, interpreted, object-oriented, functional, multi-paradigm, and dynamically typed programming language known for its emphasis on code readability and broad standard library. Python was created by Guido van Rossum and first released in 1991. It emphasizes code readability and developer productivity. == What type of language is Python? == Programming language — artificial language designed to communicate instructions to a machine. Object-oriented programming — built primarily around objects and classes. Functional programming — supports functions as first-class objects. Scripting language — often used for automation and small programs. General-purpose programming language — designed for a wide variety of application domains. Dynamically typed — type checking occurs at runtime. Interpreted language — code is executed by an interpreter. Multi-paradigm — supports procedural, object-oriented, and functional programming. == History of Python == ABC (programming language) – precursor to Python Python was started by Guido van Rossum in 1989 and first released in 1991. Python 2 — major version released in 2000, officially retired in 2020. Python 3 — released in 2008 == General Python concepts == == Issues and limitations == Performance — generally slower than many compiled languages such as C or Java can be mitigated by C extensions or JIT compilers (PyPy). Global interpreter lock — limits parallel CPU-bound threads in CPython Memory consumption — high memory use compared to some lower-level languages Version compatibility — Python 2 vs Python 3 differences caused migration issues == Python implementations == CPython — reference implementation in C IronPython — Python for .NET Jython — Python for the JVM MicroPython — Python for microcontrollers and embedded systems Nuitka — compiler that packages user code with CPython into a static binary PyPy — JIT-compiled Python interpreter for speed PythonAnywhere — freemium hosted Python installation that runs in the browser Stackless Python — Python with lightweight concurrency features == Python toolchain == List of Python software Comparison of Python IDEs Comparison of server-side web frameworks for Python List of Python frameworks List of Python libraries List of unit testing frameworks for Python Python Package Index == Notable projects using Python == YouTube (backend) Instagram (backend) Dropbox Reddit OpenStack Blender (scripting and plugins) SageMath NumPy Pandas TensorFlow == Python development communities == ActiveState — commercial Python distributions and support Anaconda, Inc. — Python data science ecosystem GitHub Python Software Foundation Python Package Index (PyPI) — third-party software repository for Python == Example source code == Articles with example Python code == Python publications == === Books about Python === Automate the Boring Stuff with Python – Creative Commons Python book Alex Martelli — Python in a Nutshell and Python Cookbook Mark Pilgrim – Dive into Python Naomi Ceder — The Quick Python Book Wes McKinney — Python for Data Analysis Zed Shaw – Learn Python the Hard Way === Textbooks === Core Python Programming == Python programmers == == Python conferences == EuroPython – annual Python conference in Europe PyCon – the largest annual convention for the Python community PyData – conference series focused on data analysis, machine learning, and scientific computing with Python SciPy Conferences – focused on the use of Python in scientific computing and research DjangoCon – a conference dedicated to the Django web framework PyOhio – a free regional Python conference held in Ohio == Python learning resources == Codecademy – interactive Python programming lessons GeeksforGeeks – tutorials, coding examples, and interactive programming for Python concepts and data structures. Kaggle – free Python courses focused on data science and machine learning. Python.org Tutorial – the official Python tutorial from the Python Software Foundation. Real Python – articles, tutorials, and courses for Python developers. W3Schools – beginner-friendly Python tutorials. Wikibooks Python Programming – free open-content textbook on Python. === Competitive programming === Codeforces – an online platform for programming contests that supports Python submissions Codewars – gamified coding challenges supporting Python HackerRank – competitive programming and interview preparation site with Python challenges Kaggle – while focused on data science competitions, it also includes Python-based problem solving. LeetCode – online judge and problem-solving platform where Python is widely used
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Minimum Population Search

In evolutionary computation, Minimum Population Search (MPS) is a computational method that optimizes a problem by iteratively trying to improve a set of candidate solutions with regard to a given measure of quality. It solves a problem by evolving a small population of candidate solutions by means of relatively simple arithmetical operations. MPS is a metaheuristic as it makes few or no assumptions about the problem being optimized and can search very large spaces of candidate solutions. For problems where finding the precise global optimum is less important than finding an acceptable local optimum in a fixed amount of time, using a metaheuristic such as MPS may be preferable to alternatives such as brute-force search or gradient descent. MPS is used for multidimensional real-valued functions but does not use the gradient of the problem being optimized, which means MPS does not require for the optimization problem to be differentiable as is required by classic optimization methods such as gradient descent and quasi-newton methods. MPS can therefore also be used on optimization problems that are not even continuous, are noisy, change over time, etc. == Background == In a similar way to Differential evolution, MPS uses difference vectors between the members of the population in order to generate new solutions. It attempts to provide an efficient use of function evaluations by maintaining a small population size. If the population size is smaller than the dimensionality of the search space, then the solutions generated through difference vectors will be constrained to the n − 1 {\displaystyle n-1} dimensional hyperplane. A smaller population size will lead to a more restricted subspace. With a population size equal to the dimensionality of the problem ( n = d ) {\displaystyle (n=d)} , the “line/hyperplane points” in MPS will be generated within a d − 1 {\displaystyle d-1} dimensional hyperplane. Taking a step orthogonal to this hyperplane will allow the search process to cover all the dimensions of the search space. Population size is a fundamental parameter in the performance of population-based heuristics. Larger populations promote exploration, but they also allow fewer generations, and this can reduce the chance of convergence. Searching with a small population can increase the chances of convergence and the efficient use of function evaluations, but it can also induce the risk of premature convergence. If the risk of premature convergence can be avoided, then a population-based heuristic could benefit from the efficiency and faster convergence rate of a smaller population. To avoid premature convergence, it is important to have a diversified population. By including techniques for explicitly increasing diversity and exploration, it is possible to have smaller populations with less risk of premature convergence. === Thresheld Convergence === Thresheld Convergence (TC) is a diversification technique which attempts to separate the processes of exploration and exploitation. TC uses a “threshold” function to establish a minimum search step, and managing this step makes it possible to influence the transition from exploration to exploitation, convergence is thus “held” back until the last stages of the search process. The goal of a controlled transition is to avoid an early concentration of the population around a few search regions and avoid the loss of diversity which can cause premature convergence. Thresheld Convergence has been successfully applied to several population-based metaheuristics such as Particle Swarm Optimization, Differential evolution, Evolution strategies, Simulated annealing and Estimation of Distribution Algorithms. The ideal case for Thresheld Convergence is to have one sample solution from each attraction basin, and for each sample solution to have the same relative fitness with respect to its local optimum. Enforcing a minimum step aims to achieve this ideal case. In MPS Thresheld Convergence is specifically used to preserve diversity and avoid premature convergence by establishing a minimum search step. By disallowing new solutions which are too close to members of the current population, TC forces a strong exploration during the early stages of the search while preserving the diversity of the (small) population. == Algorithm == A basic variant of the MPS algorithm works by having a population of size equal to the dimension of the problem. New solutions are generated by exploring the hyperplane defined by the current solutions (by means of difference vectors) and performing an additional orthogonal step in order to avoid getting caught in this hyperplane. The step sizes are controlled by the Thresheld Convergence technique, which gradually reduces step sizes as the search process advances. An outline for the algorithm is given below: Generate the first initial population. Allowing these solutions to lie near the bounds of the search space generally gives good results: s k = ( r s 1 ∗ b o u n d 1 / 2 , r s 2 ∗ b o u n d 2 / 2 , . . . , r s n ∗ b o u n d n / 2 ) {\displaystyle s_{k}=(rs_{1}bound_{1}/2,rs_{2}bound_{2}/2,...,rs_{n}bound_{n}/2)} where s k {\displaystyle s_{k}} is the k {\displaystyle k} -th population member, r s i {\displaystyle rs_{i}} are random numbers which can be −1 or 1, and the b o u n d i {\displaystyle bound_{i}} are the lower and upper bounds on each dimension. While a stop condition is not reached: Update threshold convergence values ( m i n _ s t e p {\displaystyle min\_step} and m a x _ s t e p {\displaystyle max\_step} ) Calculate the centroid of the current population ( x c {\displaystyle x_{c}} ) For each member of the population ( x i {\displaystyle x_{i}} ), generate a new offspring as follows: Uniformly generate a scaling factor ( F i {\displaystyle F_{i}} ) between − m a x _ s t e p {\displaystyle -max\_step} and m a x _ s t e p {\displaystyle max\_step} Generate a vector ( x o {\displaystyle x_{o}} ) orthogonal to the difference vector between x i {\displaystyle x_{i}} and x c {\displaystyle x_{c}} Calculate a scaling factor for the orthogonal vector: m i n _ o r t h = s q r t ( m a x ( m i n _ s t e p 2 − F i 2 , 0 ) ) {\displaystyle min\_orth=sqrt(max(min\_step^{2}-F_{i}^{2},0))} m a x _ o r t h = s q r t ( m a x ( m a x _ s t e p 2 − F i 2 , 0 ) ) {\displaystyle max\_orth=sqrt(max(max\_step^{2}-F_{i}^{2},0))} o r t h _ s t e p = u n i f o r m ( m i n _ o r t h , m a x _ o r t h ) {\displaystyle orth\_step=uniform(min\_orth,max\_orth)} Generate the new solution by adding the difference and the orthogonal vectors to the original solution n e w _ s o l u t i o n = x i + F i ∗ ( x i − x c ) ∗ o r t h _ s t e p ∗ x o {\displaystyle new\_solution=x_{i}+F_{i}(x_{i}-x_{c})orth\_stepx_{o}} Pick the best members between the old population and the new one by discarding the least fit members. Return the single best solution or the best population found as the final result.
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Least-squares support vector machine

Least-squares support-vector machines (LS-SVM) for statistics and in statistical modeling, are least-squares versions of support-vector machines (SVM), which are a set of related supervised learning methods that analyze data and recognize patterns, and which are used for classification and regression analysis. In this version one finds the solution by solving a set of linear equations instead of a convex quadratic programming (QP) problem for classical SVMs. Least-squares SVM classifiers were proposed by Johan Suykens and Joos Vandewalle. LS-SVMs are a class of kernel-based learning methods. == From support-vector machine to least-squares support-vector machine == Given a training set { x i , y i } i = 1 N {\displaystyle \{x_{i},y_{i}\}_{i=1}^{N}} with input data x i ∈ R n {\displaystyle x_{i}\in \mathbb {R} ^{n}} and corresponding binary class labels y i ∈ { − 1 , + 1 } {\displaystyle y_{i}\in \{-1,+1\}} , the SVM classifier, according to Vapnik's original formulation, satisfies the following conditions: { w T ϕ ( x i ) + b ≥ 1 , if y i = + 1 , w T ϕ ( x i ) + b ≤ − 1 , if y i = − 1 , {\displaystyle {\begin{cases}w^{T}\phi (x_{i})+b\geq 1,&{\text{if }}\quad y_{i}=+1,\\w^{T}\phi (x_{i})+b\leq -1,&{\text{if }}\quad y_{i}=-1,\end{cases}}} which is equivalent to y i [ w T ϕ ( x i ) + b ] ≥ 1 , i = 1 , … , N , {\displaystyle y_{i}\left[{w^{T}\phi (x_{i})+b}\right]\geq 1,\quad i=1,\ldots ,N,} where ϕ ( x ) {\displaystyle \phi (x)} is the nonlinear map from original space to the high- or infinite-dimensional space. === Inseparable data === In case such a separating hyperplane does not exist, we introduce so-called slack variables ξ i {\displaystyle \xi _{i}} such that { y i [ w T ϕ ( x i ) + b ] ≥ 1 − ξ i , i = 1 , … , N , ξ i ≥ 0 , i = 1 , … , N . {\displaystyle {\begin{cases}y_{i}\left[{w^{T}\phi (x_{i})+b}\right]\geq 1-\xi _{i},&i=1,\ldots ,N,\\\xi _{i}\geq 0,&i=1,\ldots ,N.\end{cases}}} According to the structural risk minimization principle, the risk bound is minimized by the following minimization problem: min J 1 ( w , ξ ) = 1 2 w T w + c ∑ i = 1 N ξ i , {\displaystyle \min J_{1}(w,\xi )={\frac {1}{2}}w^{T}w+c\sum \limits _{i=1}^{N}\xi _{i},} Subject to { y i [ w T ϕ ( x i ) + b ] ≥ 1 − ξ i , i = 1 , … , N , ξ i ≥ 0 , i = 1 , … , N , {\displaystyle {\text{Subject to }}{\begin{cases}y_{i}\left[{w^{T}\phi (x_{i})+b}\right]\geq 1-\xi _{i},&i=1,\ldots ,N,\\\xi _{i}\geq 0,&i=1,\ldots ,N,\end{cases}}} To solve this problem, we could construct the Lagrangian function: L 1 ( w , b , ξ , α , β ) = 1 2 w T w + c ∑ i = 1 N ξ i − ∑ i = 1 N α i { y i [ w T ϕ ( x i ) + b ] − 1 + ξ i } − ∑ i = 1 N β i ξ i , {\displaystyle L_{1}(w,b,\xi ,\alpha ,\beta )={\frac {1}{2}}w^{T}w+c\sum \limits _{i=1}^{N}{\xi _{i}}-\sum \limits _{i=1}^{N}\alpha _{i}\left\{y_{i}\left[{w^{T}\phi (x_{i})+b}\right]-1+\xi _{i}\right\}-\sum \limits _{i=1}^{N}\beta _{i}\xi _{i},} where α i ≥ 0 , β i ≥ 0 ( i = 1 , … , N ) {\displaystyle \alpha _{i}\geq 0,\ \beta _{i}\geq 0\ (i=1,\ldots ,N)} are the Lagrangian multipliers. The optimal point will be in the saddle point of the Lagrangian function, and then we obtain By substituting w {\displaystyle w} by its expression in the Lagrangian formed from the appropriate objective and constraints, we will get the following quadratic programming problem: max Q 1 ( α ) = − 1 2 ∑ i , j = 1 N α i α j y i y j K ( x i , x j ) + ∑ i = 1 N α i , {\displaystyle \max Q_{1}(\alpha )=-{\frac {1}{2}}\sum \limits _{i,j=1}^{N}{\alpha _{i}\alpha _{j}y_{i}y_{j}K(x_{i},x_{j})}+\sum \limits _{i=1}^{N}\alpha _{i},} where K ( x i , x j ) = ⟨ ϕ ( x i ) , ϕ ( x j ) ⟩ {\displaystyle K(x_{i},x_{j})=\left\langle \phi (x_{i}),\phi (x_{j})\right\rangle } is called the kernel function. Solving this QP problem subject to constraints in (1), we will get the hyperplane in the high-dimensional space and hence the classifier in the original space. === Least-squares SVM formulation === The least-squares version of the SVM classifier is obtained by reformulating the minimization problem as min J 2 ( w , b , e ) = μ 2 w T w + ζ 2 ∑ i = 1 N e i 2 , {\displaystyle \min J_{2}(w,b,e)={\frac {\mu }{2}}w^{T}w+{\frac {\zeta }{2}}\sum \limits _{i=1}^{N}e_{i}^{2},} subject to the equality constraints y i [ w T ϕ ( x i ) + b ] = 1 − e i , i = 1 , … , N . {\displaystyle y_{i}\left[{w^{T}\phi (x_{i})+b}\right]=1-e_{i},\quad i=1,\ldots ,N.} The least-squares SVM (LS-SVM) classifier formulation above implicitly corresponds to a regression interpretation with binary targets y i = ± 1 {\displaystyle y_{i}=\pm 1} . Using y i 2 = 1 {\displaystyle y_{i}^{2}=1} , we have ∑ i = 1 N e i 2 = ∑ i = 1 N ( y i e i ) 2 = ∑ i = 1 N e i 2 = ∑ i = 1 N ( y i − ( w T ϕ ( x i ) + b ) ) 2 , {\displaystyle \sum \limits _{i=1}^{N}e_{i}^{2}=\sum \limits _{i=1}^{N}(y_{i}e_{i})^{2}=\sum \limits _{i=1}^{N}e_{i}^{2}=\sum \limits _{i=1}^{N}\left(y_{i}-(w^{T}\phi (x_{i})+b)\right)^{2},} with e i = y i − ( w T ϕ ( x i ) + b ) . {\displaystyle e_{i}=y_{i}-(w^{T}\phi (x_{i})+b).} Notice, that this error would also make sense for least-squares data fitting, so that the same end results holds for the regression case. Hence the LS-SVM classifier formulation is equivalent to J 2 ( w , b , e ) = μ E W + ζ E D {\displaystyle J_{2}(w,b,e)=\mu E_{W}+\zeta E_{D}} with E W = 1 2 w T w {\displaystyle E_{W}={\frac {1}{2}}w^{T}w} and E D = 1 2 ∑ i = 1 N e i 2 = 1 2 ∑ i = 1 N ( y i − ( w T ϕ ( x i ) + b ) ) 2 . {\displaystyle E_{D}={\frac {1}{2}}\sum \limits _{i=1}^{N}e_{i}^{2}={\frac {1}{2}}\sum \limits _{i=1}^{N}\left(y_{i}-(w^{T}\phi (x_{i})+b)\right)^{2}.} Both μ {\displaystyle \mu } and ζ {\displaystyle \zeta } should be considered as hyperparameters to tune the amount of regularization versus the sum squared error. The solution does only depend on the ratio γ = ζ / μ {\displaystyle \gamma =\zeta /\mu } , therefore the original formulation uses only γ {\displaystyle \gamma } as tuning parameter. We use both μ {\displaystyle \mu } and ζ {\displaystyle \zeta } as parameters in order to provide a Bayesian interpretation to LS-SVM. The solution of LS-SVM regressor will be obtained after we construct the Lagrangian function: { L 2 ( w , b , e , α ) = J 2 ( w , e ) − ∑ i = 1 N α i { [ w T ϕ ( x i ) + b ] + e i − y i } , = 1 2 w T w + γ 2 ∑ i = 1 N e i 2 − ∑ i = 1 N α i { [ w T ϕ ( x i ) + b ] + e i − y i } , {\displaystyle {\begin{cases}L_{2}(w,b,e,\alpha )\;=J_{2}(w,e)-\sum \limits _{i=1}^{N}\alpha _{i}\left\{{\left[{w^{T}\phi (x_{i})+b}\right]+e_{i}-y_{i}}\right\},\\\quad \quad \quad \quad \quad \;={\frac {1}{2}}w^{T}w+{\frac {\gamma }{2}}\sum \limits _{i=1}^{N}e_{i}^{2}-\sum \limits _{i=1}^{N}\alpha _{i}\left\{\left[w^{T}\phi (x_{i})+b\right]+e_{i}-y_{i}\right\},\end{cases}}} where α i ∈ R {\displaystyle \alpha _{i}\in \mathbb {R} } are the Lagrange multipliers. The conditions for optimality are { ∂ L 2 ∂ w = 0 → w = ∑ i = 1 N α i ϕ ( x i ) , ∂ L 2 ∂ b = 0 → ∑ i = 1 N α i = 0 , ∂ L 2 ∂ e i = 0 → α i = γ e i , i = 1 , … , N , ∂ L 2 ∂ α i = 0 → y i = w T ϕ ( x i ) + b + e i , i = 1 , … , N . {\displaystyle {\begin{cases}{\frac {\partial L_{2}}{\partial w}}=0\quad \to \quad w=\sum \limits _{i=1}^{N}\alpha _{i}\phi (x_{i}),\\{\frac {\partial L_{2}}{\partial b}}=0\quad \to \quad \sum \limits _{i=1}^{N}\alpha _{i}=0,\\{\frac {\partial L_{2}}{\partial e_{i}}}=0\quad \to \quad \alpha _{i}=\gamma e_{i},\;i=1,\ldots ,N,\\{\frac {\partial L_{2}}{\partial \alpha _{i}}}=0\quad \to \quad y_{i}=w^{T}\phi (x_{i})+b+e_{i},\,i=1,\ldots ,N.\end{cases}}} Elimination of w {\displaystyle w} and e {\displaystyle e} will yield a linear system instead of a quadratic programming problem: [ 0 1 N T 1 N Ω + γ − 1 I N ] [ b α ] = [ 0 Y ] , {\displaystyle \left[{\begin{matrix}0&1_{N}^{T}\\1_{N}&\Omega +\gamma ^{-1}I_{N}\end{matrix}}\right]\left[{\begin{matrix}b\\\alpha \end{matrix}}\right]=\left[{\begin{matrix}0\\Y\end{matrix}}\right],} with Y = [ y 1 , … , y N ] T {\displaystyle Y=[y_{1},\ldots ,y_{N}]^{T}} , 1 N = [ 1 , … , 1 ] T {\displaystyle 1_{N}=[1,\ldots ,1]^{T}} and α = [ α 1 , … , α N ] T {\displaystyle \alpha =[\alpha _{1},\ldots ,\alpha _{N}]^{T}} . Here, I N {\displaystyle I_{N}} is an N × N {\displaystyle N\times N} identity matrix, and Ω ∈ R N × N {\displaystyle \Omega \in \mathbb {R} ^{N\times N}} is the kernel matrix defined by Ω i j = ϕ ( x i ) T ϕ ( x j ) = K ( x i , x j ) {\displaystyle \Omega _{ij}=\phi (x_{i})^{T}\phi (x_{j})=K(x_{i},x_{j})} . === Kernel function K === For the kernel function K(•, •) one typically has the following choices: Linear kernel : K ( x , x i ) = x i T x , {\displaystyle K(x,x_{i})=x_{i}^{T}x,} Polynomial kernel of degree d {\displaystyle d} : K ( x , x i ) = ( 1 + x i T x / c ) d , {\displaystyle K(x,x_{i})=\left({1+x_{i}^{T}x/c}\right)^{d},} Radial basis function RBF kernel : K ( x , x i ) = exp ⁡ ( − ‖ x − x i ‖ 2 / σ 2 ) , {\displaystyle K(x,x_{i})=\exp \left({-\left\|{x-x_{i}}\right\|^{2}/\sigma ^{2}}\right),} MLP kernel : K ( x , x i ) = tanh ⁡ ( k x i T x + θ ) , {\displaystyle K(x,x_{i})=\tanh \left({k
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Medoid

Medoids are representative objects of a data set or a cluster within a data set whose sum of dissimilarities to all the objects in the cluster is minimal. Medoids are similar in concept to means or centroids, but medoids are always restricted to be members of the data set. Medoids are most commonly used on data when a mean or centroid cannot be defined, such as graphs. They are also used in contexts where the centroid is not representative of the dataset like in images, 3-D trajectories and gene expression (where while the data is sparse the medoid need not be). These are also of interest while wanting to find a representative using some distance other than squared euclidean distance (for instance in movie-ratings). For some data sets there may be more than one medoid, as with medians. A common application of the medoid is the k-medoids clustering algorithm, which is similar to the k-means algorithm but works when a mean or centroid is not definable. This algorithm basically works as follows. First, a set of medoids is chosen at random. Second, the distances to the other points are computed. Third, data are clustered according to the medoid they are most similar to. Fourth, the medoid set is optimized via an iterative process. Note that a medoid is not equivalent to a median, a geometric median, or centroid. A median is only defined on 1-dimensional data, and it only minimizes dissimilarity to other points for metrics induced by a norm (such as the Manhattan distance or Euclidean distance). A geometric median is defined in any dimension, but unlike a medoid, it is not necessarily a point from within the original dataset. == Definition == Let X := { x 1 , x 2 , … , x n } {\textstyle {\mathcal {X}}:=\{x_{1},x_{2},\dots ,x_{n}\}} be a set of n {\textstyle n} points in a space with a distance function d. Medoid is defined as x medoid = arg ⁡ min y ∈ X ∑ i = 1 n d ( y , x i ) . {\displaystyle x_{\text{medoid}}=\arg \min _{y\in {\mathcal {X}}}\sum _{i=1}^{n}d(y,x_{i}).} == Clustering with medoids == Medoids are a popular replacement for the cluster mean when the distance function is not (squared) Euclidean distance, or not even a metric (as the medoid does not require the triangle inequality). When partitioning the data set into clusters, the medoid of each cluster can be used as a representative of each cluster. Clustering algorithms based on the idea of medoids include: Partitioning Around Medoids (PAM), the standard k-medoids algorithm Hierarchical Clustering Around Medoids (HACAM), which uses medoids in hierarchical clustering == Algorithms to compute the medoid of a set == From the definition above, it is clear that the medoid of a set X {\displaystyle {\mathcal {X}}} can be computed after computing all pairwise distances between points in the ensemble. This would take O ( n 2 ) {\textstyle O(n^{2})} distance evaluations (with n = | X | {\displaystyle n=|{\mathcal {X}}|} ). In the worst case, one can not compute the medoid with fewer distance evaluations. However, there are many approaches that allow us to compute medoids either exactly or approximately in sub-quadratic time under different statistical models. If the points lie on the real line, computing the medoid reduces to computing the median which can be done in O ( n ) {\textstyle O(n)} by Quick-select algorithm of Hoare. However, in higher dimensional real spaces, no linear-time algorithm is known. RAND is an algorithm that estimates the average distance of each point to all the other points by sampling a random subset of other points. It takes a total of O ( n log ⁡ n ϵ 2 ) {\textstyle O\left({\frac {n\log n}{\epsilon ^{2}}}\right)} distance computations to approximate the medoid within a factor of ( 1 + ϵ Δ ) {\textstyle (1+\epsilon \Delta )} with high probability, where Δ {\textstyle \Delta } is the maximum distance between two points in the ensemble. Note that RAND is an approximation algorithm, and moreover Δ {\textstyle \Delta } may not be known apriori. RAND was leveraged by TOPRANK which uses the estimates obtained by RAND to focus on a small subset of candidate points, evaluates the average distance of these points exactly, and picks the minimum of those. TOPRANK needs O ( n 5 3 log 4 3 ⁡ n ) {\textstyle O(n^{\frac {5}{3}}\log ^{\frac {4}{3}}n)} distance computations to find the exact medoid with high probability under a distributional assumption on the average distances. trimed presents an algorithm to find the medoid with O ( n 3 2 2 Θ ( d ) ) {\textstyle O(n^{\frac {3}{2}}2^{\Theta (d)})} distance evaluations under a distributional assumption on the points. The algorithm uses the triangle inequality to cut down the search space. Meddit leverages a connection of the medoid computation with multi-armed bandits and uses an upper-Confidence-bound type of algorithm to get an algorithm which takes O ( n log ⁡ n ) {\textstyle O(n\log n)} distance evaluations under statistical assumptions on the points. Correlated Sequential Halving also leverages multi-armed bandit techniques, improving upon Meddit. By exploiting the correlation structure in the problem, the algorithm is able to provably yield drastic improvement (usually around 1-2 orders of magnitude) in both number of distance computations needed and wall clock time. == Implementations == An implementation of RAND, TOPRANK, and trimed can be found here. An implementation of Meddit can be found here and here. An implementation of Correlated Sequential Halving can be found here. == Medoids in text and natural language processing (NLP) == Medoids can be applied to various text and NLP tasks to improve the efficiency and accuracy of analyses. By clustering text data based on similarity, medoids can help identify representative examples within the dataset, leading to better understanding and interpretation of the data. === Text clustering === Text clustering is the process of grouping similar text or documents together based on their content. Medoid-based clustering algorithms can be employed to partition large amounts of text into clusters, with each cluster represented by a medoid document. This technique helps in organizing, summarizing, and retrieving information from large collections of documents, such as in search engines, social media analytics and recommendation systems. === Text summarization === Text summarization aims to produce a concise and coherent summary of a larger text by extracting the most important and relevant information. Medoid-based clustering can be used to identify the most representative sentences in a document or a group of documents, which can then be combined to create a summary. This approach is especially useful for extractive summarization tasks, where the goal is to generate a summary by selecting the most relevant sentences from the original text. === Sentiment analysis === Sentiment analysis involves determining the sentiment or emotion expressed in a piece of text, such as positive, negative, or neutral. Medoid-based clustering can be applied to group text data based on similar sentiment patterns. By analyzing the medoid of each cluster, researchers can gain insights into the predominant sentiment of the cluster, helping in tasks such as opinion mining, customer feedback analysis, and social media monitoring. === Topic modeling === Topic modeling is a technique used to discover abstract topics that occur in a collection of documents. Medoid-based clustering can be applied to group documents with similar themes or topics. By analyzing the medoids of these clusters, researchers can gain an understanding of the underlying topics in the text corpus, facilitating tasks such as document categorization, trend analysis, and content recommendation. === Techniques for measuring text similarity in medoid-based clustering === When applying medoid-based clustering to text data, it is essential to choose an appropriate similarity measure to compare documents effectively. Each technique has its advantages and limitations, and the choice of the similarity measure should be based on the specific requirements and characteristics of the text data being analyzed. The following are common techniques for measuring text similarity in medoid-based clustering: ==== Cosine similarity ==== Cosine similarity is a widely used measure to compare the similarity between two pieces of text. It calculates the cosine of the angle between two document vectors in a high-dimensional space. Cosine similarity ranges between -1 and 1, where a value closer to 1 indicates higher similarity, and a value closer to -1 indicates lower similarity. By visualizing two lines originating from the origin and extending to the respective points of interest, and then measuring the angle between these lines, one can determine the similarity between the associated points. Cosine similarity is less affected by document length, so it may be better at producing medoids that are representative of the content of a cluster instead of the lengt
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Grammatik

Grammatik was the first grammar-checking program for home computers. Aspen Software of Albuquerque, NM, released the earliest version of this diction and style checker for personal computers. It was first released no later than 1981, and was inspired by the Writer's Workbench. Grammatik was first available for the TRS-80, and soon had versions for CP/M and the IBM PC. Reference Software International of San Francisco, California, acquired Grammatik in 1985. Development of Grammatik continued, and it became an actual grammar checker that could detect writing errors beyond simple style checking. Subsequent versions were released for MS-DOS, Windows, Macintosh, and Unix. Grammatik was ultimately acquired by WordPerfect Corporation and is integrated into the WordPerfect word processor.
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Prescription monitoring program

In the United States, prescription monitoring programs (PMPs) or prescription drug monitoring programs (PDMPs) are state-run programs which collect and distribute data about the prescription and dispensation of federally controlled substances and, depending on state requirements, other potentially abusable prescription drugs. PMPs are meant to help prevent adverse drug-related events such as opioid overdoses, drug diversion, and substance abuse by decreasing the amount and/or frequency of opioid prescribing, and by identifying those patients who are obtaining prescriptions from multiple providers (i.e., "doctor shopping") or those physicians overprescribing opioids. Most US health care workers support the idea of PMPs, which intend to assist physicians, physician assistants, nurse practitioners, dentists and other prescribers, the pharmacists, chemists and support staff of dispensing establishments. The database, whose use is required by State law, typically requires prescribers and pharmacies dispensing controlled substances to register with their respective state PMPs and (for pharmacies and providers who dispense from their offices) to report the dispensation of such prescriptions to an electronic online database. The majority of PMPs are authorized to notify law enforcement agencies or licensing boards or physicians when a prescriber, or patients receiving prescriptions, exceed thresholds established by the state or prescription recipient exceeds thresholds established by the State. All states have implemented PDMPs, although evidence for the effectiveness of these programs is mixed. While prescription of opioids has decreased with PMP use, overdose deaths in many states have actually increased, with those states sharing data with neighboring jurisdictions or requiring reporting of more drugs experiencing highest increases in deaths. This may be because those declined opioid prescriptions turn to street drugs, whose potency and contaminants carry greater overdose risk. == History == Prescription drug monitoring programs, or PDMPs, are an example of one initiative proposed to alleviate effects of the opioid crisis. The programs are designed to restrict prescription drug abuse by limiting a patient's ability to obtain similar prescriptions from multiple providers (i.e. “doctor shopping”) and reducing diversion of controlled substances. This is meant to reduce risk of fatal overdose caused by high doses of opioids or interactions between opioids and benzodiazepenes, and to enable better decision making on the part of healthcare providers who may be unaware of a patient's prescription drug use, history or other prescriptions. PDMPs have been implemented in state legislations since 1939 in California, a time before electronic medical records, though implementation rose alongside increased awareness of overprescribing of opioids and overdose. A later New York state program was struck down by the U.S. Supreme Court in Whalen v. Roe. But, by 2019, 49 states, the District of Columbia, and Guam had enacted PDMP legislation. In 2021 Missouri, the last State to not use a PMP, adopted legislation to create one. PMPs are constantly being updated to increase speed of data collection, sharing of data across States, and ease of interpretation. This is being done by integrating PDMP reports with other health information technologies such as health information exchanges (HIE), electronic health record (EHR) systems, and/ or pharmacy dispensing software systems. One program that has been implemented in nine states is called the PDMP Electronic Health Records Integration and Interoperability Expansion, also known as PEHRIIE. Another software, marketed by Bamboo Health and integrated with PMPs in 43 states, uses an algorithm to track factors thought to increase risk of diversion, abuse or overdose, and assigns patients a three digit score based on presumed indicators of risk. While some studies have suggested that PDMP-HIT integration and sharing of interstate data brings benefits such as reduced opioid-related inpatient morbidity, others have found no or negative impact on mortality compared to states without PMP data sharing. Patient and media reports suggest need for testing and evaluation of algorithmic software used to score risk, with some patients reporting denial of prescriptions without c explanation or clarity of data. == Goals == Most health care workers support PMPs which intend to assist physicians, physician assistants, nurse practitioners, dentists and other prescribers, the pharmacists, chemists and support staff of dispensing establishments, as well as law-enforcement agencies. The collaboration supports the legitimate medical use of controlled substances while limiting their abuse and diversion. Pharmacies dispensing controlled substances and prescribers typically must register with their respective state PMPs and (for pharmacies and providers who dispense controlled substances from their offices) report the dispensation to an electronic online database. Some pharmacy software can submit these reports automatically to multiple states. == Usage == === List of programs by state === === Software systems === NarxCare is a prescription drug monitoring program (PDMP) run by Bamboo Health. Bamboo Health was formerly known as Appriss. It is widely used across the United States by pharmacies including Rite Aid as well as those at Walmart and Sam’s Club. The NarxCare software allows doctors to view data about a patient, combining data from the prescription registries of various U.S. states to make the registries interoperable nationally. It also uses machine learning to generate an "Overdose Risk Score" that potentially includes EMS and criminal justice data; these scores have been criticized by researchers and patient advocates for the lack of transparency in the process as well as the potential for disparate treatment of women and minority groups. Advertised as an "analytics tool and care management platform", the NarxCare software allows doctors to view data about a patient including how many pharmacies they have visited and the combinations of medication they are prescribed. It combines data from the prescription registries of various U.S. states, making the registries interoperable nationally. It additionally uses machine learning to generate various three-digit "risk scores" and an overall "Overdose Risk Score", collectively referred to as Narx Scores, in a process that potentially includes EMS and criminal justice data as well as court records. == Controversy == Many doctors and researchers support the idea of PDMPs as a tool in combatting the opioid epidemic. Opioid prescribing, opioid diversion and supply, opioid misuse, and opioid-related morbidity and mortality are common elements in data entered into PDMPs. Prescription Monitoring Programs are purported to offer economic benefits for the states who implement them by decreasing overall health care costs, lost productivity, and investigation times. However, there are many studies that conclude the impact of PDMPs is unclear. While use of PMPs has been accompanied by decrease in opioid prescribing, few analyses consider corresponding use of street opioids, extramedical use, or diversion, which might provide a more holistic method for evaluation of PMP intent and efficacy. Evidence for PDMP impact on fatal overdoses is decidedly mixed, with multiple studies finding increased overdose rates in some states, decreases in others, or no clear impact. Interestingly, an increase in heroin overdoses after PDMP implementation has been commonly reported, presumably as denial of prescription opioids sends patients in search of street drugs. Narx Scores have been criticized by researchers and patient advocates for the lack of transparency in the generation process as well as the potential for disparate treatment of women and minority groups. Writing in Duke Law Journal, Jennifer Oliva stated that "black-box algorithms" are used to generate the scores.
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Diffusion model

In machine learning, diffusion models, also known as diffusion-based generative models or score-based generative models, are a class of latent variable generative models. A diffusion model consists of two major components: the forward diffusion process, and the reverse sampling process. The goal of diffusion models is to learn a diffusion process for a given dataset, such that the process can generate new elements that are distributed similarly as the original dataset. A diffusion model models data as generated by a diffusion process, whereby a new datum performs a random walk with drift through the space of all possible data. A trained diffusion model can be sampled in many ways, with different efficiency and quality. There are various equivalent formalisms, including Markov chains, denoising diffusion probabilistic models, noise conditioned score networks, and stochastic differential equations. They are typically trained using variational inference. The model responsible for denoising is typically called its "backbone". The backbone may be of any kind, but they are typically U-nets or transformers. As of 2024, diffusion models are mainly used for computer vision tasks, including image denoising, inpainting, super-resolution, image generation, and video generation. These typically involve training a neural network to sequentially denoise images blurred with Gaussian noise. The model is trained to reverse the process of adding noise to an image. After training to convergence, it can be used for image generation by starting with an image composed of random noise, and applying the network iteratively to denoise the image. Diffusion-based image generators have seen widespread commercial interest, such as Stable Diffusion and DALL-E. These models typically combine diffusion models with other models, such as text-encoders and cross-attention modules to allow text-conditioned generation. Other than computer vision, diffusion models have also found applications in natural language processing such as text generation and summarization, sound generation, and reinforcement learning. == Denoising diffusion model == === Non-equilibrium thermodynamics === Diffusion models were introduced in 2015 as a method to train a model that can sample from a highly complex probability distribution. They used techniques from non-equilibrium thermodynamics, especially diffusion. Consider, for example, how one might model the distribution of all naturally occurring photos. Each image is a point in the space of all images, and the distribution of naturally occurring photos is a "cloud" in space, which, by repeatedly adding noise to the images, diffuses out to the rest of the image space, until the cloud becomes all but indistinguishable from a Gaussian distribution N ( 0 , I ) {\displaystyle {\mathcal {N}}(0,I)} . A model that can approximately undo the diffusion can then be used to sample from the original distribution. This is studied in "non-equilibrium" thermodynamics, as the starting distribution is not in equilibrium, unlike the final distribution. The equilibrium distribution is the Gaussian distribution N ( 0 , I ) {\displaystyle {\mathcal {N}}(0,I)} , with pdf ρ ( x ) ∝ e − 1 2 ‖ x ‖ 2 {\displaystyle \rho (x)\propto e^{-{\frac {1}{2}}\|x\|^{2}}} . This is just the Maxwell–Boltzmann distribution of particles in a potential well V ( x ) = 1 2 ‖ x ‖ 2 {\displaystyle V(x)={\frac {1}{2}}\|x\|^{2}} at temperature 1. The initial distribution, being very much out of equilibrium, would diffuse towards the equilibrium distribution, making biased random steps that are a sum of pure randomness (like a Brownian walker) and gradient descent down the potential well. The randomness is necessary: if the particles were to undergo only gradient descent, then they will all fall to the origin, collapsing the distribution. === Denoising Diffusion Probabilistic Model (DDPM) === The 2020 paper proposed the Denoising Diffusion Probabilistic Model (DDPM), which improves upon the previous method by variational inference. ==== Forward diffusion ==== To present the model, some notation is required. β 1 , . . . , β T ∈ ( 0 , 1 ) {\displaystyle \beta _{1},...,\beta _{T}\in (0,1)} are fixed constants. α t := 1 − β t {\displaystyle \alpha _{t}:=1-\beta _{t}} α ¯ t := α 1 ⋯ α t {\displaystyle {\bar {\alpha }}_{t}:=\alpha _{1}\cdots \alpha _{t}} σ t := 1 − α ¯ t {\displaystyle \sigma _{t}:={\sqrt {1-{\bar {\alpha }}_{t}}}} σ ~ t := σ t − 1 σ t β t {\displaystyle {\tilde {\sigma }}_{t}:={\frac {\sigma _{t-1}}{\sigma _{t}}}{\sqrt {\beta _{t}}}} μ ~ t ( x t , x 0 ) := α t ( 1 − α ¯ t − 1 ) x t + α ¯ t − 1 ( 1 − α t ) x 0 σ t 2 {\displaystyle {\tilde {\mu }}_{t}(x_{t},x_{0}):={\frac {{\sqrt {\alpha _{t}}}(1-{\bar {\alpha }}_{t-1})x_{t}+{\sqrt {{\bar {\alpha }}_{t-1}}}(1-\alpha _{t})x_{0}}{\sigma _{t}^{2}}}} N ( μ , Σ ) {\displaystyle {\mathcal {N}}(\mu ,\Sigma )} is the normal distribution with mean μ {\displaystyle \mu } and variance Σ {\displaystyle \Sigma } , and N ( x | μ , Σ ) {\displaystyle {\mathcal {N}}(x|\mu ,\Sigma )} is the probability density at x {\displaystyle x} . A vertical bar denotes conditioning. A forward diffusion process starts at some starting point x 0 ∼ q {\displaystyle x_{0}\sim q} , where q {\displaystyle q} is the probability distribution to be learned, then repeatedly adds noise to it by x t = 1 − β t x t − 1 + β t z t {\displaystyle x_{t}={\sqrt {1-\beta _{t}}}x_{t-1}+{\sqrt {\beta _{t}}}z_{t}} where z 1 , . . . , z T {\displaystyle z_{1},...,z_{T}} are IID (Independent and identically distributed random variables) samples from N ( 0 , I ) {\displaystyle {\mathcal {N}}(0,I)} . The coefficients 1 − β t {\displaystyle {\sqrt {1-\beta _{t}}}} and β t {\displaystyle {\sqrt {\beta _{t}}}} ensure that Var ( X t ) = I {\displaystyle {\mbox{Var}}(X_{t})=I} assuming that Var ( X 0 ) = I {\displaystyle {\mbox{Var}}(X_{0})=I} . The values of β t {\displaystyle \beta _{t}} are chosen such that for any starting distribution of x 0 {\displaystyle x_{0}} , if it has finite second moment, then lim t → ∞ x t | x 0 {\displaystyle \lim _{t\to \infty }x_{t}|x_{0}} converges to N ( 0 , I ) {\displaystyle {\mathcal {N}}(0,I)} . The entire diffusion process then satisfies q ( x 0 : T ) = q ( x 0 ) q ( x 1 | x 0 ) ⋯ q ( x T | x T − 1 ) = q ( x 0 ) N ( x 1 | α 1 x 0 , β 1 I ) ⋯ N ( x T | α T x T − 1 , β T I ) {\displaystyle q(x_{0:T})=q(x_{0})q(x_{1}|x_{0})\cdots q(x_{T}|x_{T-1})=q(x_{0}){\mathcal {N}}(x_{1}|{\sqrt {\alpha _{1}}}x_{0},\beta _{1}I)\cdots {\mathcal {N}}(x_{T}|{\sqrt {\alpha _{T}}}x_{T-1},\beta _{T}I)} or ln ⁡ q ( x 0 : T ) = ln ⁡ q ( x 0 ) − ∑ t = 1 T 1 2 β t ‖ x t − 1 − β t x t − 1 ‖ 2 + C {\displaystyle \ln q(x_{0:T})=\ln q(x_{0})-\sum _{t=1}^{T}{\frac {1}{2\beta _{t}}}\|x_{t}-{\sqrt {1-\beta _{t}}}x_{t-1}\|^{2}+C} where C {\displaystyle C} is a normalization constant and often omitted. In particular, we note that x 1 : T | x 0 {\displaystyle x_{1:T}|x_{0}} is a Gaussian process, which affords us considerable freedom in reparameterization. For example, by standard manipulation with Gaussian process, x t | x 0 ∼ N ( α ¯ t x 0 , σ t 2 I ) {\displaystyle x_{t}|x_{0}\sim N\left({\sqrt {{\bar {\alpha }}_{t}}}x_{0},\sigma _{t}^{2}I\right)} x t − 1 | x t , x 0 ∼ N ( μ ~ t ( x t , x 0 ) , σ ~ t 2 I ) {\displaystyle x_{t-1}|x_{t},x_{0}\sim {\mathcal {N}}({\tilde {\mu }}_{t}(x_{t},x_{0}),{\tilde {\sigma }}_{t}^{2}I)} In particular, notice that for large t {\displaystyle t} , the variable x t | x 0 ∼ N ( α ¯ t x 0 , σ t 2 I ) {\displaystyle x_{t}|x_{0}\sim N\left({\sqrt {{\bar {\alpha }}_{t}}}x_{0},\sigma _{t}^{2}I\right)} converges to N ( 0 , I ) {\displaystyle {\mathcal {N}}(0,I)} . That is, after a long enough diffusion process, we end up with some x T {\displaystyle x_{T}} that is very close to N ( 0 , I ) {\displaystyle {\mathcal {N}}(0,I)} , with all traces of the original x 0 ∼ q {\displaystyle x_{0}\sim q} gone. For example, since x t | x 0 ∼ N ( α ¯ t x 0 , σ t 2 I ) {\displaystyle x_{t}|x_{0}\sim N\left({\sqrt {{\bar {\alpha }}_{t}}}x_{0},\sigma _{t}^{2}I\right)} we can sample x t | x 0 {\displaystyle x_{t}|x_{0}} directly "in one step", instead of going through all the intermediate steps x 1 , x 2 , . . . , x t − 1 {\displaystyle x_{1},x_{2},...,x_{t-1}} . ==== Backward diffusion ==== The key idea of DDPM is to use a neural network parametrized by θ {\displaystyle \theta } . The network takes in two arguments x t , t {\displaystyle x_{t},t} , and outputs a vector μ θ ( x t , t ) {\displaystyle \mu _{\theta }(x_{t},t)} and a matrix Σ θ ( x t , t ) {\displaystyle \Sigma _{\theta }(x_{t},t)} , such that each step in the forward diffusion process can be approximately undone by x t − 1 ∼ N ( μ θ ( x t , t ) , Σ θ ( x t , t ) ) {\displaystyle x_{t-1}\sim {\mathcal {N}}(\mu _{\theta }(x_{t},t),\Sigma _{\theta }(x_{t},t))} . This then gives us a backward diffusion process p θ {\displaystyle p_{\theta }} defined by p θ ( x T ) = N ( x T | 0 , I ) {\displaystyle p_{\theta }(x
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Geographical cluster

A geographical cluster is a localized anomaly, usually an excess of something given the distribution or variation of something else. Often it is considered as an incidence rate that is unusual in that there is more of some variable than might be expected. Examples would include: a local excess disease rate, a crime hot spot, areas of high unemployment, accident blackspots, unusually high positive residuals from a model, high concentrations of flora or fauna, physical features or events like earthquake epicenters etc... Identifying these extreme regions may be useful in that there could be implicit geographical associations with other variables that can be identified and would be of interest. Pattern detection via the identification of such geographical clusters is a very simple and generic form of geographical analysis that has many applications in many different contexts. The emphasis is on localized clustering or patterning because this may well contain the most useful information. A geographical cluster is different from a high concentration as it is generally second order, involving the factoring in of the distribution of something else. == Geographical cluster detection == Identifying geographical clusters can be an important stage in a geographical analysis. Mapping the locations of unusual concentrations may help identify causes of these. Some techniques include the Geographical Analysis Machine and Besag and Newell's cluster detection method.
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Computational photography

Computational photography refers to digital image capture and processing techniques that use digital computation instead of optical processes. Computational photography can improve the capabilities of a camera, or introduce features that were not possible at all with film-based photography, or reduce the cost or size of camera elements. Examples of computational photography include in-camera computation of digital panoramas, high-dynamic-range images, and light field cameras. Light field cameras use novel optical elements to capture three-dimensional scene information, which can then be used to produce 3D images, enhanced depth-of-field, and selective de-focusing (or "post focus"). Enhanced depth-of-field reduces the need for mechanical focusing systems. All of these features use computational imaging techniques. The definition of computational photography has evolved to cover a number of subject areas in computer graphics, computer vision, and applied optics. These areas are given below, organized according to a taxonomy proposed by Shree K. Nayar. Within each area is a list of techniques, and for each technique, one or two representative papers or books are cited. Deliberately omitted from the taxonomy are image processing (see also digital image processing) techniques applied to traditionally captured images to produce better images. Examples of such techniques are image scaling, dynamic range compression (i.e. tone mapping), color management, image completion (a.k.a. inpainting or hole filling), image compression, digital watermarking, and artistic image effects. Also omitted are techniques that produce range data, volume data, 3D models, 4D light fields, 4D, 6D, or 8D BRDFs, or other high-dimensional image-based representations. Epsilon photography is a sub-field of computational photography. == Effect on photography == Photos taken using computational photography can allow amateurs to produce photographs rivalling the quality of professional photographers, but as of 2019 do not outperform the use of professional-level equipment. == Computational illumination == This is controlling photographic illumination in a structured fashion, then processing the captured images, to create new images. The applications include image-based relighting, image enhancement, image deblurring, geometry/material recovery and so forth. High-dynamic-range imaging uses differently exposed pictures of the same scene to extend dynamic range. Other examples include processing and merging differently illuminated images of the same subject matter ("lightspace"). == Computational optics == This is a capture of optically coded images, followed by computational decoding to produce new images. Coded aperture imaging was mainly applied in astronomy and X-ray imaging to boost the image quality. Instead of a single pin-hole, a pinhole pattern is applied in imaging, and deconvolution is performed to recover the image. In coded exposure imaging, the on/off state of the shutter is coded to modify the kernel of motion blur. In this way, motion deblurring becomes a well-conditioned problem. Similarly, in a lens based coded aperture, the aperture can be modified by inserting a broadband mask. Thus, out of focus deblurring becomes a well-conditioned problem. The coded aperture can also improve the quality in light field acquisition using Hadamard transform optics. Coded aperture patterns can also be designed using color filters, in order to apply different codes at different wavelengths. This allows for increase the amount of light that reaches the camera sensor, compared to binary masks. == Computational imaging == Computational imaging is a set of imaging techniques that combine data acquisition and data processing to create the image of an object through indirect means to yield enhanced resolution, additional information such as optical phase or 3D reconstruction. The information is often recorded without using a conventional optical microscope configuration or with limited datasets. Computational imaging allows going beyond physical limitations of optical systems, such as numerical aperture, or even obliterates the need for optical elements. For parts of the optical spectrum where imaging elements such as objectives are difficult to manufacture or image sensors cannot be miniaturized, computational imaging provides useful alternatives, in fields such as X-ray and THz radiations. === Common techniques === Among common computational imaging techniques are lensless imaging, computational speckle imaging , ptychography and Fourier ptychography. Computational imaging technique often draws on compressive sensing or phase retrieval techniques, where the angular spectrum of the object is reconstructed. Other techniques are related to the field of computational imaging, such as digital holography, computer vision and inverse problems such as tomography. == Computational processing == This is the processing of non-optically-coded images to produce new images. == Computational sensors == These are detectors that combine sensing and processing, typically in hardware, like the oversampled binary image sensor. == Early work in computer vision == Although computational photography is a currently popular buzzword in computer graphics, many of its techniques first appeared in the computer vision literature, either under other names or within papers aimed at 3D shape analysis. == Art history == Computational photography, as an art form, has been practiced by capturing differently exposed pictures of the same subject matter and combining them. This was the inspiration for the development of the wearable computer in the 1970s and early 1980s. Computational photography was inspired by the work of Charles Wyckoff, and thus computational photography datasets (e.g. differently exposed pictures of the same subject matter that are taken in order to make a single composite image) are sometimes referred to as Wyckoff Sets, in his honor. Early work in this area (joint estimation of image projection and exposure value) was undertaken by Mann and Candoccia. Charles Wyckoff devoted much of his life to creating special kinds of 3-layer photographic films that captured different exposures of the same subject matter. A picture of a nuclear explosion, taken on Wyckoff's film, appeared on the cover of Life Magazine and showed the dynamic range from the dark outer areas to the inner core.
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Nonlinear dimensionality reduction

Nonlinear dimensionality reduction (NLDR), also known as manifold learning, is any of various related techniques that aim to project high-dimensional data, potentially existing across non-linear manifolds which cannot be adequately captured by linear decomposition methods, onto lower-dimensional latent manifolds, with the goal of either visualizing the data in the low-dimensional space, or learning the mapping (either from the high-dimensional space to the low-dimensional embedding or vice versa) itself. The techniques described below can be understood as generalizations of linear decomposition methods used for dimensionality reduction, such as singular value decomposition and principal component analysis. == Applications of NLDR == High dimensional data can be hard for machines to work with, requiring significant time and space for analysis. It also presents a challenge for humans, since it's hard to visualize or understand data in more than three dimensions. Reducing the dimensionality of a data set, while keeping its essential features relatively intact, can make algorithms more efficient and allow analysts to visualize trends and patterns. The reduced-dimensional representations of data are often referred to as "intrinsic variables". This description implies that these are the values from which the data was produced. For example, consider a dataset that contains images of a letter 'A', which has been scaled and rotated by varying amounts. Each image has 32×32 pixels. Each image can be represented as a vector of 1024 pixel values. Each row is a sample on a two-dimensional manifold in 1024-dimensional space (a Hamming space). The intrinsic dimensionality is two, because two variables (rotation and scale) were varied in order to produce the data. Information about the shape or look of a letter 'A' is not part of the intrinsic variables because it is the same in every instance. Nonlinear dimensionality reduction will discard the correlated information (the letter 'A') and recover only the varying information (rotation and scale). By comparison, if principal component analysis, which is a linear dimensionality reduction algorithm, is used to reduce this same dataset into two dimensions, the resulting values are not so well organized. This demonstrates that the high-dimensional vectors (each representing a letter 'A') that sample this manifold vary in a non-linear manner. It should be apparent, therefore, that NLDR has several applications in the field of computer-vision. For example, consider a robot that uses a camera to navigate in a closed static environment. The images obtained by that camera can be considered to be samples on a manifold in high-dimensional space, and the intrinsic variables of that manifold will represent the robot's position and orientation. Invariant manifolds are of general interest for model order reduction in dynamical systems. In particular, if there is an attracting invariant manifold in the phase space, nearby trajectories will converge onto it and stay on it indefinitely, rendering it a candidate for dimensionality reduction of the dynamical system. While such manifolds are not guaranteed to exist in general, the theory of spectral submanifolds (SSM) gives conditions for the existence of unique attracting invariant objects in a broad class of dynamical systems. Active research in NLDR seeks to unfold the observation manifolds associated with dynamical systems to develop modeling techniques. Some of the more prominent nonlinear dimensionality reduction techniques are listed below. == Important concepts == === Sammon's mapping === Sammon's mapping is one of the first and most popular NLDR techniques. === Self-organizing map === The self-organizing map (SOM, also called Kohonen map) and its probabilistic variant generative topographic mapping (GTM) use a point representation in the embedded space to form a latent variable model based on a non-linear mapping from the embedded space to the high-dimensional space. These techniques are related to work on density networks, which also are based around the same probabilistic model. === Kernel principal component analysis === Perhaps the most widely used algorithm for dimensional reduction is kernel PCA. PCA begins by computing the covariance matrix of the m × n {\displaystyle m\times n} matrix X {\displaystyle \mathbf {X} } C = 1 m ∑ i = 1 m x i x i T . {\displaystyle C={\frac {1}{m}}\sum _{i=1}^{m}{\mathbf {x} _{i}\mathbf {x} _{i}^{\mathsf {T}}}.} It then projects the data onto the first k eigenvectors of that matrix. By comparison, KPCA begins by computing the covariance matrix of the data after being transformed into a higher-dimensional space, C = 1 m ∑ i = 1 m Φ ( x i ) Φ ( x i ) T . {\displaystyle C={\frac {1}{m}}\sum _{i=1}^{m}{\Phi (\mathbf {x} _{i})\Phi (\mathbf {x} _{i})^{\mathsf {T}}}.} It then projects the transformed data onto the first k eigenvectors of that matrix, just like PCA. It uses the kernel trick to factor away much of the computation, such that the entire process can be performed without actually computing Φ ( x ) {\displaystyle \Phi (\mathbf {x} )} . Of course Φ {\displaystyle \Phi } must be chosen such that it has a known corresponding kernel. Unfortunately, it is not trivial to find a good kernel for a given problem, so KPCA does not yield good results with some problems when using standard kernels. For example, it is known to perform poorly with these kernels on the Swiss roll manifold. However, one can view certain other methods that perform well in such settings (e.g., Laplacian Eigenmaps, LLE) as special cases of kernel PCA by constructing a data-dependent kernel matrix. KPCA has an internal model, so it can be used to map points onto its embedding that were not available at training time. === Principal curves and manifolds === Principal curves and manifolds give the natural geometric framework for nonlinear dimensionality reduction and extend the geometric interpretation of PCA by explicitly constructing an embedded manifold, and by encoding using standard geometric projection onto the manifold. This approach was originally proposed by Trevor Hastie in his 1984 thesis, which he formally introduced in 1989. This idea has been explored further by many authors. How to define the "simplicity" of the manifold is problem-dependent, however, it is commonly measured by the intrinsic dimensionality and/or the smoothness of the manifold. Usually, the principal manifold is defined as a solution to an optimization problem. The objective function includes a quality of data approximation and some penalty terms for the bending of the manifold. The popular initial approximations are generated by linear PCA and Kohonen's SOM. === Laplacian eigenmaps === Laplacian eigenmaps uses spectral techniques to perform dimensionality reduction. This technique relies on the basic assumption that the data lies in a low-dimensional manifold in a high-dimensional space. This algorithm cannot embed out-of-sample points, but techniques based on Reproducing kernel Hilbert space regularization exist for adding this capability. Such techniques can be applied to other nonlinear dimensionality reduction algorithms as well. Traditional techniques like principal component analysis do not consider the intrinsic geometry of the data. Laplacian eigenmaps builds a graph from neighborhood information of the data set. Each data point serves as a node on the graph and connectivity between nodes is governed by the proximity of neighboring points (using e.g. the k-nearest neighbor algorithm). The graph thus generated can be considered as a discrete approximation of the low-dimensional manifold in the high-dimensional space. Minimization of a cost function based on the graph ensures that points close to each other on the manifold are mapped close to each other in the low-dimensional space, preserving local distances. The eigenfunctions of the Laplace–Beltrami operator on the manifold serve as the embedding dimensions, since under mild conditions this operator has a countable spectrum that is a basis for square integrable functions on the manifold (compare to Fourier series on the unit circle manifold). Attempts to place Laplacian eigenmaps on solid theoretical ground have met with some success, as under certain nonrestrictive assumptions, the graph Laplacian matrix has been shown to converge to the Laplace–Beltrami operator as the number of points goes to infinity. === Isomap === Isomap is a combination of the Floyd–Warshall algorithm with classic Multidimensional Scaling (MDS). Classic MDS takes a matrix of pair-wise distances between all points and computes a position for each point. Isomap assumes that the pair-wise distances are only known between neighboring points, and uses the Floyd–Warshall algorithm to compute the pair-wise distances between all other points. This effectively estimates the full matrix of pair-wise geodesic distances between all of the points. Isomap th
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Non-negative matrix factorization

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