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  Elastix (image registration)

  Elastix is an image registration toolbox built upon the Insight Segmentation and Registration Toolkit (ITK). It is entirely open-source and provides a wide range of algorithms employed in image registration problems. Its components are designed to be modular to ease a fast and reliable creation of various registration pipelines tailored for case-specific applications. It was first developed by Stefan Klein and Marius Staring under the supervision of Josien P.W. Pluim at Image Sciences Institute (ISI). Its first version was command-line based, allowing the final user to employ scripts to automatically process big data-sets and deploy multiple registration pipelines with few lines of code. Nowadays, to further widen its audience, a version called SimpleElastix is also available, developed by Kasper Marstal, which allows the integration of elastix with high level languages, such as Python, Java, and R. == Image registration fundamentals == Image registration is a well-known technique in digital image processing that searches for the geometric transformation that, applied to a moving image, obtains a one-to-one map with a target image. Generally, the images acquired from different sensors (multimodal), time instants (multitemporal), and points of view (multiview) should be correctly aligned to proceed with further processing and feature extraction. Even though there are a plethora of different approaches to image registration, the majority is composed of the same macro building blocks, namely the transformation, the interpolator, the metric, and the optimizer. Registering two or more images can be framed as an optimization problem that requires multiple iterations to converge to the best solution. Starting from an initial transformation computed from the image moments the optimization process searches for the best transformation parameters based on the value of the selected similarity metric. The figure on the right shows the high-level representation of the registration of two images, where the reference remains constant during the entire process, while the moving one will be transformed according to the transformation parameters. In other words, the registration ends when the similarity metric, which is a mathematical function with a certain number of parameters to be optimized, reaches the optimal value which is highly dependent on the specific application. == Main building blocks == Following the structure of the image registration workflow, the elastix toolbox proposes a modular solution that implements for each of the building blocks different algorithms, highly employed in medical image registration, and helps the final users to build their specific pipeline by selecting the most suitable algorithm for each of the main building blocks. Each block is easily configurable both by selecting pre-defined initialization values or by trying multiple sets of parameters and then choosing the most performing one. The registration is performed on images, and the elastix toolbox supports all the data formats supported by ITK, ranging from JPEG and PNG to medical standard formats such as DICOM and NIFTI. It also stores physical pixel spacing, the origin and the relative position to an external world reference system, when provided in the metadata, to facilitate the registration process, especially in medical field applications. === Transformation === The transformation is an essential building block, since it defines the allowable transformations. In image registration, the main distinction can be done between parallel-to-parallel and parallel-to-non parallel (deformable) line mapping transformations. In the elastix toolbox, the final users can select one transformation or compose more transformations either through addition or via composition. Below are reported the different transformation models in order of increasing flexibility, along with the corresponding elastix class names between brackets. Translation (TranslationTransform) allows only translations Rigid (EulerTransform) expands the translation adding rotations and the object is seen as a rigid body Similarity (SimilarityTransform) expands the rigid transformation by introducing isotropic scaling Affine (AffineTransform) expands the rigid transformation allowing both scaling and shear B-splines (BSplineTransform) is a deformable transformation usually preceded by a rigid or affine one Thin-plate splines (SplineKernelTransform) is a deformable transformation belonging to the class of kernel-based transformations that is a composition of and affine and a non-rigid part === Metric === The similarity metric is the mathematical function whose parameters should be optimized to reach the desired registration, and, during the process, it is computed multiple times. Below are reported the available metrics computed employing the reference and the transformed images and the corresponding elastix class names between brackets. Mean squared difference (AdvancedMeanSquares) to be used for mono-modal applications Normalized correlation coefficient (AdvancedNormalizedCorrelation) to be used for images that have an intensity linear relationship Mutual information (AdvancedMattesMutualInformation) to be used for both mono- and multi-modal applications and optimized to reach better performance compared to the normalized version Normalized mutual information (NormalizedMutualInformation) for both mono- and multi-modal applications Kappa statistic (AdvancedKappaStatistic) to be used only for binary images === Sampler === For the computation of the similarity metrics, it is not always necessary to consider all the voxels and, sometimes, it can be useful to use only a fraction of the voxels of the images, i.e. to reduce the execution time for big input images. Below are reported the available criteria for selecting a fraction of the voxels for the similarity metric computation and the corresponding elastix class names between brackets. Full (Full) to employ all the voxels Grid (Grid) to employ a regular grid defined by the user to downsample the image Random (Random) to randomly select a percentage of voxels defined by the users (all voxels have equal probability to be selected) Random coordinate (RandomCoordinate) like the random criterion, but in this case also off-grid positions can be selected to simplify the optimization process === Interpolator === After the application of the transformation, it may occur that the voxels used for the similarity metric computation are at non-voxel positions, so intensity interpolation should be performed to ensure the correctness of the computed values. Below are reported the implemented interpolators and the corresponding elastix class names between brackets. Nearest neighbor (NearestNeighborInterpolator) exploits little resources, but gives low quality results Linear (LinearInterpolator) is sufficient in general applications N-th order B-spline (BSplineInterpolator) can be used to increase the order N, increasing quality and computation time. N=0 and N=1 indicate the nearest neighbor and linear cases respectively. === Optimizer === The optimizer defines the strategy employed for searching the best transformation parameter to reach the correct registration, and it is commonly an iterative strategy. Below are reported some of the implemented optimization strategies. Gradient descent Robbins-Monro, similar to the gradient descent, but employing an approximation of the cost function derivatives A wider range of optimizers is also available, such as Quasi-Newton or evolutionary strategies. === Other features === The elastix software also offers other features that can be employed to speed up the registration procedure and to provide more advanced algorithms to the end-users. Some examples are the introduction of blur and Gaussian pyramid to reduce data complexity, and multi-image and multi-metric framework to deal with more complex applications. == Applications == Elastix has applications mainly in the medical field, where image registration is fundamental to get comprehensive information regarding the analysed anatomical region. It is widely employed in image-guided surgery, tumour monitoring, and treatment assessment. For example, in radiotherapy planning, image registration allows to correctly deliver the treatment and evaluate the obtained results. Thanks to the wide range of implemented algorithms, the use of the elastix software allows physicians and researchers to test different registration pipelines from the simplest to more complex ones, and to save the best one as a configuration file. This file and the fact that the software is completely open-source makes it easy to reproduce the work, that can help supporting the open science paradigm, and allows fast reuse on different patients data. In image-guided surgery, registration time and accuracy are critical points, considering that, during the registration, the patient is on the operating table, and the imag

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  Softmax function

  The softmax function, also known as softargmax or normalized exponential function, converts a tuple of K real numbers into a probability distribution over K possible outcomes. It is a generalization of the logistic function to multiple dimensions, and is used in multinomial logistic regression. The softmax function is often used as the last activation function of a neural network to normalize the output of a network to a probability distribution over predicted output classes. == Definition == The softmax function takes as input a tuple z of K real numbers, and normalizes it into a probability distribution consisting of K probabilities proportional to the exponentials of the input numbers. That is, prior to applying softmax, some tuple components could be negative, or greater than one; and might not sum to 1; but after applying softmax, each component will be in the interval ( 0 , 1 ) {\displaystyle (0,1)} , and the components will add up to 1, so that they can be interpreted as probabilities. Furthermore, the larger input components will correspond to larger probabilities. Formally, the standard (unit) softmax function σ : R K → ( 0 , 1 ) K {\displaystyle \sigma :\mathbb {R} ^{K}\to (0,1)^{K}} , where ⁠ K > 1 {\displaystyle K>1} ⁠, takes a tuple z = ( z 1 , … , z K ) ∈ R K {\displaystyle \mathbf {z} =(z_{1},\dotsc ,z_{K})\in \mathbb {R} ^{K}} and computes each component of vector σ ( z ) ∈ ( 0 , 1 ) K {\displaystyle \sigma (\mathbf {z} )\in (0,1)^{K}} with σ ( z ) i = e z i ∑ j = 1 K e z j . {\displaystyle \sigma (\mathbf {z} )_{i}={\frac {e^{z_{i}}}{\sum _{j=1}^{K}e^{z_{j}}}}\,.} In words, the softmax applies the standard exponential function to each element z i {\displaystyle z_{i}} of the input tuple z {\displaystyle \mathbf {z} } (consisting of K {\displaystyle K} real numbers), and normalizes these values by dividing by the sum of all these exponentials. The normalization ensures that the sum of the components of the output vector σ ( z ) {\displaystyle \sigma (\mathbf {z} )} is 1. The term "softmax" derives from the amplifying effects of the exponential on any maxima in the input tuple. For example, the standard softmax of ( 1 , 2 , 8 ) {\displaystyle (1,2,8)} is approximately ( 0.001 , 0.002 , 0.997 ) {\displaystyle (0.001,0.002,0.997)} , which amounts to assigning almost all of the total unit weight in the result to the position of the tuple's maximal element (of 8). In general, instead of e a different base b > 0 can be used. As above, if b > 1 then larger input components will result in larger output probabilities, and increasing the value of b will create probability distributions that are more concentrated around the positions of the largest input values. Conversely, if 0 < b < 1 then smaller input components will result in larger output probabilities, and decreasing the value of b will create probability distributions that are more concentrated around the positions of the smallest input values. Writing b = e β {\displaystyle b=e^{\beta }} or b = e − β {\displaystyle b=e^{-\beta }} (for real β) yields the expressions: σ ( z ) i = e β z i ∑ j = 1 K e β z j or σ ( z ) i = e − β z i ∑ j = 1 K e − β z j for i = 1 , … , K . {\displaystyle \sigma (\mathbf {z} )_{i}={\frac {e^{\beta z_{i}}}{\sum _{j=1}^{K}e^{\beta z_{j}}}}{\text{ or }}\sigma (\mathbf {z} )_{i}={\frac {e^{-\beta z_{i}}}{\sum _{j=1}^{K}e^{-\beta z_{j}}}}{\text{ for }}i=1,\dotsc ,K.} A value proportional to the reciprocal of β is sometimes referred to as the temperature: β = 1 / k T {\textstyle \beta =1/kT} , where k is typically 1 or the Boltzmann constant and T is the temperature. A higher temperature results in a more uniform output distribution (i.e. with higher entropy; it is "more random"), while a lower temperature results in a sharper output distribution, with one value dominating. In some fields, the base is fixed, corresponding to a fixed scale, while in others the parameter β (or T) is varied. The softmax function is a multiple-variable generalization of the logistic function. == Interpretations == === Smooth arg max === The Softmax function is a smooth approximation to the arg max function: the function whose value is the index of a tuple's largest element. The name "softmax" may be misleading. Softmax is not a smooth maximum (that is, a smooth approximation to the maximum function). The term "softmax" is also used for the closely related LogSumExp function, which is a smooth maximum. For this reason, some prefer the more accurate term "softargmax", though the term "softmax" is conventional in machine learning. This section uses the term "softargmax" for clarity. Formally, instead of considering the arg max as a function with categorical output 1 , … , n {\displaystyle 1,\dots ,n} (corresponding to the index), consider the arg max function with one-hot representation of the output (assuming there is a unique maximum arg): a r g m a x ⁡ ( z 1 , … , z n ) = ( y 1 , … , y n ) = ( 0 , … , 0 , 1 , 0 , … , 0 ) , {\displaystyle \operatorname {arg\,max} (z_{1},\,\dots ,\,z_{n})=(y_{1},\,\dots ,\,y_{n})=(0,\,\dots ,\,0,\,1,\,0,\,\dots ,\,0),} where the output coordinate y i = 1 {\displaystyle y_{i}=1} if and only if i {\displaystyle i} is the arg max of ( z 1 , … , z n ) {\displaystyle (z_{1},\dots ,z_{n})} , meaning z i {\displaystyle z_{i}} is the unique maximum value of ( z 1 , … , z n ) {\displaystyle (z_{1},\,\dots ,\,z_{n})} . For example, in this encoding a r g m a x ⁡ ( 1 , 5 , 10 ) = ( 0 , 0 , 1 ) , {\displaystyle \operatorname {arg\,max} (1,5,10)=(0,0,1),} since the third argument is the maximum. This can be generalized to multiple arg max values (multiple equal z i {\displaystyle z_{i}} being the maximum) by dividing the 1 between all max args; formally 1/k where k is the number of arguments assuming the maximum. For example, a r g m a x ⁡ ( 1 , 5 , 5 ) = ( 0 , 1 / 2 , 1 / 2 ) , {\displaystyle \operatorname {arg\,max} (1,\,5,\,5)=(0,\,1/2,\,1/2),} since the second and third argument are both the maximum. In case all arguments are equal, this is simply a r g m a x ⁡ ( z , … , z ) = ( 1 / n , … , 1 / n ) . {\displaystyle \operatorname {arg\,max} (z,\dots ,z)=(1/n,\dots ,1/n).} Points z with multiple arg max values are singular points (or singularities, and form the singular set) – these are the points where arg max is discontinuous (with a jump discontinuity) – while points with a single arg max are known as non-singular or regular points. With the last expression given in the introduction, softargmax is now a smooth approximation of arg max: as ⁠ β → ∞ {\displaystyle \beta \to \infty } ⁠, softargmax converges to arg max. There are various notions of convergence of a function; softargmax converges to arg max pointwise, meaning for each fixed input z as ⁠ β → ∞ {\displaystyle \beta \to \infty } ⁠, σ β ( z ) → a r g m a x ⁡ ( z ) . {\displaystyle \sigma _{\beta }(\mathbf {z} )\to \operatorname {arg\,max} (\mathbf {z} ).} However, softargmax does not converge uniformly to arg max, meaning intuitively that different points converge at different rates, and may converge arbitrarily slowly. In fact, softargmax is continuous, but arg max is not continuous at the singular set where two coordinates are equal, while the uniform limit of continuous functions is continuous. The reason it fails to converge uniformly is that for inputs where two coordinates are almost equal (and one is the maximum), the arg max is the index of one or the other, so a small change in input yields a large change in output. For example, σ β ( 1 , 1.0001 ) → ( 0 , 1 ) , {\displaystyle \sigma _{\beta }(1,\,1.0001)\to (0,1),} but σ β ( 1 , 0.9999 ) → ( 1 , 0 ) , {\displaystyle \sigma _{\beta }(1,\,0.9999)\to (1,\,0),} and σ β ( 1 , 1 ) = 1 / 2 {\displaystyle \sigma _{\beta }(1,\,1)=1/2} for all inputs: the closer the points are to the singular set ( x , x ) {\displaystyle (x,x)} , the slower they converge. However, softargmax does converge compactly on the non-singular set. Conversely, as ⁠ β → − ∞ {\displaystyle \beta \to -\infty } ⁠, softargmax converges to arg min in the same way, where here the singular set is points with two arg min values. In the language of tropical analysis, the softmax is a deformation or "quantization" of arg max and arg min, corresponding to using the log semiring instead of the max-plus semiring (respectively min-plus semiring), and recovering the arg max or arg min by taking the limit is called "tropicalization" or "dequantization". It is also the case that, for any fixed β, if one input ⁠ z i {\displaystyle z_{i}} ⁠ is much larger than the others relative to the temperature, T = 1 / β {\displaystyle T=1/\beta } , the output is approximately the arg max. For example, a difference of 10 is large relative to a temperature of 1: σ ( 0 , 10 ) := σ 1 ( 0 , 10 ) = ( 1 / ( 1 + e 10 ) , e 10 / ( 1 + e 10 ) ) ≈ ( 0.00005 , 0.99995 ) {\displaystyle \sigma (0,\,10):=\sigma _{1}(0,\,10)=\left(1/\left(1+e^{10}\right),\,e^{10}/\left(1+e^{10}\right)\right)\approx (0.00005

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  Nearest centroid classifier

  In machine learning, a nearest centroid classifier or nearest prototype classifier is a classification model that assigns to observations the label of the class of training samples whose mean (centroid) is closest to the observation. When applied to text classification using word vectors containing tfidf weights to represent documents, the nearest centroid classifier is known as the Rocchio classifier because of its similarity to the Rocchio algorithm for relevance feedback. An extended version of the nearest centroid classifier has found applications in the medical domain, specifically classification of tumors. == Algorithm == === Training === Given labeled training samples { ( x → 1 , y 1 ) , … , ( x → n , y n ) } {\displaystyle \textstyle \{({\vec {x}}_{1},y_{1}),\dots ,({\vec {x}}_{n},y_{n})\}} with class labels y i ∈ Y {\displaystyle y_{i}\in \mathbf {Y} } , compute the per-class centroids μ → ℓ = 1 | C ℓ | ∑ i ∈ C ℓ x → i {\displaystyle \textstyle {\vec {\mu }}_{\ell }={\frac {1}{|C_{\ell }|}}{\underset {i\in C_{\ell }}{\sum }}{\vec {x}}_{i}} where C ℓ {\displaystyle C_{\ell }} is the set of indices of samples belonging to class ℓ ∈ Y {\displaystyle \ell \in \mathbf {Y} } . === Prediction === The class assigned to an observation x → {\displaystyle {\vec {x}}} is y ^ = arg ⁡ min ℓ ∈ Y ‖ μ → ℓ − x → ‖ {\displaystyle {\hat {y}}={\arg \min }_{\ell \in \mathbf {Y} }\|{\vec {\mu }}_{\ell }-{\vec {x}}\|} .

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  ImageNets

  ImageNets is an open source framework for rapid prototyping of machine vision algorithms, developed by the Institute of Automation. == Description == ImageNets is an open source and platform independent (Windows & Linux) framework for rapid prototyping of machine vision algorithms. With the GUI ImageNet Designer, no programming knowledge is required to perform operations on images. A configured ImageNet can be loaded and executed from C++ code without the need for loading the ImageNet Designer GUI to achieve higher execution performance. == History == ImageNets was developed by the Institute of Automation, University of Bremen, Germany. The software was first publicly released in 2010. Originally, ImageNets was developed for the Care-Providing Robot FRIEND but it can be used for a wide range of computer vision applications.

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  Histogram of oriented displacements

  Histogram of oriented displacements (HOD) is a 2D trajectory descriptor. The trajectory is described using a histogram of the directions between each two consecutive points. Given a trajectory T = {P1, P2, P3, ..., Pn}, where Pt is the 2D position at time t. For each pair of positions Pt and Pt+1, calculate the direction angle θ(t, t+1). Value of θ is between 0 and 360. A histogram of the quantized values of θ is created. If the histogram is of 8 bins, the first bin represents all θs between 0 and 45. The histogram accumulates the lengths of the consecutive moves. For each θ, a specific histogram bin is determined. The length of the line between Pt and Pt+1 is then added to the specific histogram bin. To show the intuition behind the descriptor, consider the action of waving hands. At the end of the action, the hand falls down. When describing this down movement, the descriptor does not care about the position from which the hand started to fall. This fall will affect the histogram with the appropriate angles and lengths, regardless of the position where the hand started to fall. HOD records for each moving point: how much it moves in each range of directions. HOD has a clear physical interpretation. It proposes that, a simple way to describe the motion of an object, is to indicate how much distance it moves in each direction. If the movement in all directions are saved accurately, the movement can be repeated from the initial position to the final destination regardless of the displacements order. However, the temporal information will be lost, as the order of movements is not stored-this is what we solve by applying the temporal pyramid, as shown in section \ref{sec:temp-pyramid}. If the angles quantization range is small, classifiers that use the descriptor will overfit. Generalization needs some slack in directions-which can be done by increasing the quantization range.

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  VIGRA

  VIGRA is the abbreviation for "Vision with Generic Algorithms". It is a free open-source computer vision library which focuses on customizable algorithms and data structures. VIGRA component can be easily adapted to specific needs of target application without compromising execution speed, by using template techniques similar to those in the C++ Standard Template Library. == Features == VIGRA is cross-platform, with working builds on Microsoft Windows, Mac OS X, Linux, and OpenBSD. Since version 1.7.1, VIGRA provides Python bindings based on numpy framework. == History == VIGRA was originally designed and implemented by scientists at University of Hamburg faculty of computer science; its core maintainers are now working at Heidelberg Collaboratory for Image Processing (HCI) University of Heidelberg. In the meantime, many developers have contributed to the project. == Application == CellCognition and ilastik uses VIGRA computer vision library. OpenOffice.org uses VIGRA as part of its headless software rendering backend; LibreOffice does so until version 5.2.

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  Jackknife variance estimates for random forest

  In statistics, jackknife variance estimates for random forest are a way to estimate the variance in random forest models, in order to eliminate the bootstrap effects. == Jackknife variance estimates == The sampling variance of bagged learners is: V ( x ) = V a r [ θ ^ ∞ ( x ) ] {\displaystyle V(x)=Var[{\hat {\theta }}^{\infty }(x)]} Jackknife estimates can be considered to eliminate the bootstrap effects. The jackknife variance estimator is defined as: V ^ j = n − 1 n ∑ i = 1 n ( θ ^ ( − i ) − θ ¯ ) 2 {\displaystyle {\hat {V}}_{j}={\frac {n-1}{n}}\sum _{i=1}^{n}({\hat {\theta }}_{(-i)}-{\overline {\theta }})^{2}} In some classification problems, when random forest is used to fit models, jackknife estimated variance is defined as: V ^ j = n − 1 n ∑ i = 1 n ( t ¯ ( − i ) ⋆ ( x ) − t ¯ ⋆ ( x ) ) 2 {\displaystyle {\hat {V}}_{j}={\frac {n-1}{n}}\sum _{i=1}^{n}({\overline {t}}_{(-i)}^{\star }(x)-{\overline {t}}^{\star }(x))^{2}} Here, t ⋆ {\displaystyle t^{\star }} denotes a decision tree after training, t ( − i ) ⋆ {\displaystyle t_{(-i)}^{\star }} denotes the result based on samples without i t h {\displaystyle ith} observation. == Examples == E-mail spam problem is a common classification problem, in this problem, 57 features are used to classify spam e-mail and non-spam e-mail. Applying IJ-U variance formula to evaluate the accuracy of models with m=15,19 and 57. The results shows in paper( Confidence Intervals for Random Forests: The jackknife and the Infinitesimal Jackknife ) that m = 57 random forest appears to be quite unstable, while predictions made by m=5 random forest appear to be quite stable, this results is corresponding to the evaluation made by error percentage, in which the accuracy of model with m=5 is high and m=57 is low. Here, accuracy is measured by error rate, which is defined as: E r r o r R a t e = 1 N ∑ i = 1 N ∑ j = 1 M y i j , {\displaystyle ErrorRate={\frac {1}{N}}\sum _{i=1}^{N}\sum _{j=1}^{M}y_{ij},} Here N is also the number of samples, M is the number of classes, y i j {\displaystyle y_{ij}} is the indicator function which equals 1 when i t h {\displaystyle ith} observation is in class j, equals 0 when in other classes. No probability is considered here. There is another method which is similar to error rate to measure accuracy: l o g l o s s = 1 N ∑ i = 1 N ∑ j = 1 M y i j l o g ( p i j ) {\displaystyle logloss={\frac {1}{N}}\sum _{i=1}^{N}\sum _{j=1}^{M}y_{ij}log(p_{ij})} Here N is the number of samples, M is the number of classes, y i j {\displaystyle y_{ij}} is the indicator function which equals 1 when i t h {\displaystyle ith} observation is in class j, equals 0 when in other classes. p i j {\displaystyle p_{ij}} is the predicted probability of i t h {\displaystyle ith} observation in class j {\displaystyle j} .This method is used in Kaggle These two methods are very similar. == Modification for bias == When using Monte Carlo MSEs for estimating V I J ∞ {\displaystyle V_{IJ}^{\infty }} and V J ∞ {\displaystyle V_{J}^{\infty }} , a problem about the Monte Carlo bias should be considered, especially when n is large, the bias is getting large: E [ V ^ I J B ] − V ^ I J ∞ ≈ n ∑ b = 1 B ( t b ⋆ − t ¯ ⋆ ) 2 B {\displaystyle E[{\hat {V}}_{IJ}^{B}]-{\hat {V}}_{IJ}^{\infty }\approx {\frac {n\sum _{b=1}^{B}(t_{b}^{\star }-{\bar {t}}^{\star })^{2}}{B}}} To eliminate this influence, bias-corrected modifications are suggested: V ^ I J − U B = V ^ I J B − n ∑ b = 1 B ( t b ⋆ − t ¯ ⋆ ) 2 B {\displaystyle {\hat {V}}_{IJ-U}^{B}={\hat {V}}_{IJ}^{B}-{\frac {n\sum _{b=1}^{B}(t_{b}^{\star }-{\bar {t}}^{\star })^{2}}{B}}} V ^ J − U B = V ^ J B − ( e − 1 ) n ∑ b = 1 B ( t b ⋆ − t ¯ ⋆ ) 2 B {\displaystyle {\hat {V}}_{J-U}^{B}={\hat {V}}_{J}^{B}-(e-1){\frac {n\sum _{b=1}^{B}(t_{b}^{\star }-{\bar {t}}^{\star })^{2}}{B}}}

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  Automated Pain Recognition

  Automated Pain Recognition (APR) is a method for objectively measuring pain and at the same time represents an interdisciplinary research area that comprises elements of medicine, psychology, psychobiology, and computer science. The focus is on computer-aided objective recognition of pain, implemented on the basis of machine learning. Automated pain recognition allows for the valid, reliable detection and monitoring of pain in people who are unable to communicate verbally. The underlying machine learning processes are trained and validated in advance by means of unimodal or multimodal body signals. Signals used to detect pain may include facial expressions or gestures and may also be of a (psycho-)physiological or paralinguistic nature. To date, the focus has been on identifying pain intensity, but visionary efforts are also being made to recognize the quality, site, and temporal course of pain. However, the clinical implementation of this approach is a controversial topic in the field of pain research. Critics of automated pain recognition argue that pain diagnosis can only be performed subjectively by humans. == Background == Pain diagnosis under conditions where verbal reporting is restricted - such as in verbally and/or cognitively impaired people or in patients who are sedated or mechanically ventilated - is based on behavioral observations by trained professionals. However, all known observation procedures (e.g., Zurich Observation Pain Assessment (ZOPA)); Pain Assessment in Advanced Dementia Scale (PAINAD) require a great deal of specialist expertise. These procedures can be made more difficult by perception- and interpretation-related misjudgments on the part of the observer. With regard to the differences in design, methodology, evaluation sample, and conceptualization of the phenomenon of pain, it is difficult to compare the quality criteria of the various tools. Even if trained personnel could theoretically record pain intensity several times a day using observation instruments, it would not be possible to measure it every minute or second. In this respect, the goal of automated pain recognition is to use valid, robust pain response patterns that can be recorded multimodally for a temporally dynamic, high-resolution, automated pain intensity recognition system. == Procedure == For automated pain recognition, pain-relevant parameters are usually recorded using non-invasive sensor technology, which captures data on the (physical) responses of the person in pain. This can be achieved with camera technology that captures facial expressions, gestures, or posture, while audio sensors record paralinguistic features. (Psycho-)physiological information such as muscle tone and heart rate can be collected via biopotential sensors (electrodes). Pain recognition requires the extraction of meaningful characteristics or patterns from the data collected. This is achieved using machine learning techniques that are able to provide an assessment of the pain after training (learning), e.g., "no pain," "mild pain," or "severe pain." == Parameters == Although the phenomenon of pain comprises different components (sensory discriminative, affective (emotional), cognitive, vegetative, and (psycho-)motor), automated pain recognition currently relies on the measurable parameters of pain responses. These can be divided roughly into the two main categories of "physiological responses" and "behavioral responses". === Physiological responses === In humans, pain almost always initiates autonomic nervous processes that are reflected measurably in various physiological signals. ==== Physiological signals ==== Measurements can include electrodermal activity (EDA, also skin conductance), electromyography (EMG), electrocardiogram (ECG), blood volume pulse (BVP), electroencephalogram (EEG), respiration, and body temperature, which are regulatory mechanisms of the sympathetic and parasympathetic systems. Physiological signals are mainly recorded using special non-invasive surface electrodes (for EDA, EMG, ECG, and EEG), a blood volume pulse sensor (BVP), a respiratory belt (respiration), and a thermal sensor (body temperature). Endocrinological and immunological parameters can also be recorded, but this requires measures that are somewhat invasive (e.g., blood sampling). === Behavioral responses === Behavioral responses to pain fulfil two functions: protection of the body (e.g., through protective reflexes) and external communication of the pain (e.g., as a cry for help). The responses are particularly evident in facial expressions, gestures, and paralinguistic features. ==== Facial expressions ==== Behavioral signals captured comprise facial expression patterns (expressive behavior), which are measured with the aid of video signals. Facial expression recognition is based on the everyday clinical observation that pain often manifests itself in the patient's facial expressions but that this is not necessarily always the case, since facial expressions can be inhibited through self-control. Despite the possibility that facial expressions may be influenced consciously, facial expression behavior represents an essential source of information for pain diagnosis and is thus also a source of information for automatic pain recognition. One advantage of video-based facial expression recognition is the contact-free measurement of the face, provided that it can be captured on video, which is not possible in every position (e.g., lying face down) or may be limited by bandages covering the face. Facial expression analysis relies on rapid, spontaneous, and temporary changes in neuromuscular activity that lead to visually detectable changes in the face. ==== Gestures ==== Gestures are also captured predominantly using non-contact camera technology. Motor pain responses vary and are strongly dependent on the type and cause of the pain. They range from abrupt protective reflexes (e.g., spontaneous retraction of extremities or doubling up) to agitation (pathological restlessness) and avoidance behavior (hesitant, cautious movements). ==== Paralinguistic features of language ==== Among other things, pain leads to nonverbal linguistic behavior that manifests itself in sounds such as sighing, gasping, moaning, whining, etc. Paralinguistic features are usually recorded using highly sensitive microphones. == Algorithms == After the recording, pre-processing (e.g., filtering), and extraction of relevant features, an optional information fusion can be performed. During this process, modalities from different signal sources are merged to generate new or more precise knowledge. The pain is classified using machine learning processes. The method chosen has a significant influence on the recognition rate and depends greatly on the quality and granularity of the underlying data. Similar to the field of affective computing, the following classifiers are currently being used: Support Vector Machine (SVM): The goal of an SVM is to find a clearly defined optimal hyperplane with the greatest minimal distance to two (or more) classes to be separated. The hyperplane acts as a decision function for classifying an unknown pattern. Random Forest (RF): RF is based on the composition of random, uncorrelated decision trees. An unknown pattern is judged individually by each tree and assigned to a class. The final classification of the patterns by the RF is then based on a majority decision. k-Nearest Neighbors (k-NN): The k-NN algorithm classifies an unknown object using the class label that most commonly classifies the k neighbors closest to it. Its neighbors are determined using a selected similarity measure (e.g., Euclidean distance, Jaccard coefficient, etc.). Artificial neural networks (ANNs): ANNs are inspired by biological neural networks and model their organizational principles and processes in a very simplified manner. Class patterns are learned by adjusting the weights of the individual neuronal connections. == Databases == In order to classify pain in a valid manner, it is necessary to create representative, reliable, and valid pain databases that are available to the machine learner for training. An ideal database would be sufficiently large and would consist of natural (not experimental), high-quality pain responses. However, natural responses are difficult to record and can only be obtained to a limited extent; in most cases they are characterized by suboptimal quality. The databases currently available therefore contain experimental or quasi-experimental pain responses, and each database is based on a different pain model. The following list shows a selection of the most relevant pain databases (last updated: April 2020): UNBC-McMaster Shoulder Pain BioVid Heat Pain EmoPain SenseEmotion X-ITE Pain

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  ReRites

  ReRites (also known as RERITES, ReadingRites, Big Data Poetry) is a literary work of "Human + A.I. poetry" by David Jhave Johnston that used neural network models trained to generate poetry which the author then edited. ReRites won the Robert Coover Award for a Work of Electronic Literature in 2022. == About the project == The ReRites project began as a daily rite of writing with a neural network, expanded into a series of performances from which video documentation has been published online, and concluded with a set of 12 books and an accompanying book of essays published by Anteism Books in 2019. In Electronic Literature, Scott Rettberg describes the early phases of the project in 2016, when it bore the preliminary name Big Data Poetry. Jhave (the artist name that David Jhave Johnston goes by) describes the process of writing ReRites as a rite: "Every morning for 2 hours (normally 6:30–8:30am) I get up and edit the poetic output of a neural net. Deleting, weaving, conjugating, lineating, cohering. Re-writing. Re-wiring authorship: hybrid augmented enhanced evolutionary". There is video documentation of the writing process. The human editing of the neural network's output is fundamental to this project, and Jhave gives examples of both unedited text extracts and his edited versions in publications about the project. Kyle Booten describes ReRites as "simultaneously dusty and outrageously verdant, monotonously sublime and speckled with beautiful and rare specimens". === Performances === ReRites was first shared with an audience through a series of performances where audience members and poets would participate in reading the automatically generated texts, which appeared on screen so fast that human readers could barely keep up. This has been described as allowing participants to "re-discover[..] the peculiar pleasures of being embodied", or, in Jhave's own words, as a space where human participants were "playing their wits and voices against an evocative infinite deep-learning muse". The first performance was at Brown University's Interrupt Festival in 2019. It has been performed many times since, including at the Barbican Centre in London and Anteism Books. === Print publications === For a single year Jhave published one book of poetry from the ReRites project each month. These twelve volumes are accompanied by a book of essays, all published by Anteism Books. The accompanying essays provide critical responses to the project from poets and scholars including Allison Parrish, Johanna Drucker, Kyle Booten, Stephanie Strickland, John Cayley, Lai-Tze Fan, Nick Montfort, Mairéad Byrne, and Chris Funkhouser. Allison Parrish notes elsewhere that these paratexts to ReRites serve a legitimising function for a genre of poetry that is not yet institutionally acknowledged. === Technical details === Starting in 2016 under the name Big Data Poetry, Jhave generated poems using, in his own words, "neural network code (..) adapted from three corporate github-hosted machine-learning libraries: TensorFlow (Google), PyTorch (Facebook), and AWD-LSTM (SalesForce)". He explains that the "models were trained on a customised corpus of 600,000 lines of poetry ranging from the romantic epoch to the 20th century avant garde". Jhave maintains a GitHub repository with some of the code supporting ReRites. == Reception == ReRites is described by John Cayley as "one of the most thorough and beautiful" poetic responses to machine learning. The work's influence on the field of electronic literature was acknowledged in 2022, when the work won the Electronic Literature Organization's Robert Coover Award for a Work of Electronic Literature. The jury described ReRites as particularly poignant in the time of the pandemic, as it was "a documentation of the performance of the private ritual of writing and the obsessive-compulsive need for writers to communicate — even when no one else is reading". The question of authorship and voice in ReRites has been raised by several critics. Although generated poetry is an established genre in electronic literature, Cayley notes that unlike the combinatory poems created by authors like Nick Montfort, where the author explicitly defines which words and phrases will be recombined, ReRites has "not been directed by literary preconceptions inscribed in the program itself, but only by patterns and rhythms pre-existing in the corpora". In an essay for the Australian journal TEXT, David Thomas Henry Wright asks how to understand authorship and authority in ReRites: "Who or what is the authority of the work? The original data fed into the machine, that is not currently retrievable or discernible from the final works? The code that was taken and adapted for his purposes? Or Jhave, the human editor?" Wright concludes that Jhave is the only actor with any intentionality and therefore the authority of the work. The centrality of the human editor is also emphasised by other scholars. In a chapter analysing ReRites Malthe Stavning Erslev argues that the machine learning misrepresents the dataset it is trained on. While ReRites uses 21st century neural networks, it has been compared to earlier literary traditions. Poet Victoria Stanton, who read at one of the ReRites performances, has compared ReRites to found poetry, while David Thomas Henry Wright compares it to the Oulipo movement and Mark Amerika to the cut-up technique. Scholars also position ReRites firmly within the long tradition of generative poetry both in electronic literature and print, stretching from the I Ching, Queneau's Cent Mille Milliards de Poemes and Nabokov's Pale Fire to computer-generated poems like Christopher Strachey's Love Letter Generator (1952) and more contemporary examples. Jhave describes the process of working with the output from the neural network as "carving". In his book My Life as an Artificial Creative Intelligence, Mark Amerika writes that the "method of carving the digital outputs provided by the language model as part of a collaborative remix jam session with GPT-2, where the language artist and the language model play off each other’s unexpected outputs as if caught in a live postproduction set, is one I share with electronic literature composer David Jhave Johnston, whose AI poetry experiments precede my own investigations."

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  Recursive neural network

  A recursive neural network is a kind of deep neural network created by applying the same set of weights recursively over a structured input, to produce a structured prediction over variable-size input structures, or a scalar prediction on it, by traversing a given structure in topological order. These networks were first introduced to learn distributed representations of structure (such as logical terms), but have been successful in multiple applications, for instance in learning sequence and tree structures in natural language processing (mainly continuous representations of phrases and sentences based on word embeddings). == Architectures == === Basic === In the simplest architecture, nodes are combined into parents using a weight matrix (which is shared across the whole network) and a non-linearity such as the tanh {\displaystyle \tanh } hyperbolic function. If c 1 {\displaystyle c_{1}} and c 2 {\displaystyle c_{2}} are n {\displaystyle n} -dimensional vector representations of nodes, their parent will also be an n {\displaystyle n} -dimensional vector, defined as: p 1 , 2 = tanh ⁡ ( W [ c 1 ; c 2 ] ) {\displaystyle p_{1,2}=\tanh(W[c_{1};c_{2}])} where W {\displaystyle W} is a learned n × 2 n {\displaystyle n\times 2n} weight matrix. This architecture, with a few improvements, has been used for successfully parsing natural scenes, syntactic parsing of natural language sentences, and recursive autoencoding and generative modeling of 3D shape structures in the form of cuboid abstractions. === Recursive cascade correlation (RecCC) === RecCC is a constructive neural network approach to deal with tree domains with pioneering applications to chemistry and extension to directed acyclic graphs. === Unsupervised RNN === A framework for unsupervised RNN has been introduced in 2004. === Tensor === Recursive neural tensor networks use a single tensor-based composition function for all nodes in the tree. == Training == === Stochastic gradient descent === Typically, stochastic gradient descent (SGD) is used to train the network. The gradient is computed using backpropagation through structure (BPTS), a variant of backpropagation through time used for recurrent neural networks. == Properties == The universal approximation capability of RNNs over trees has been proved in literature. == Related models == === Recurrent neural networks === Recurrent neural networks are recursive artificial neural networks with a certain structure: that of a linear chain. Whereas recursive neural networks operate on any hierarchical structure, combining child representations into parent representations, recurrent neural networks operate on the linear progression of time, combining the previous time step and a hidden representation into the representation for the current time step. === Tree Echo State Networks === An efficient approach to implement recursive neural networks is given by the Tree Echo State Network within the reservoir computing paradigm. === Extension to graphs === Extensions to graphs include graph neural network (GNN), Neural Network for Graphs (NN4G), and more recently convolutional neural networks for graphs.

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  Neural cryptography

  Neural cryptography is a branch of cryptography dedicated to analyzing the application of stochastic algorithms, especially artificial neural network algorithms, for use in encryption and cryptanalysis. == Definition == Artificial neural networks are well known for their ability to selectively explore the solution space of a given problem. This feature finds a natural niche of application in the field of cryptanalysis. At the same time, neural networks offer a new approach to attack ciphering algorithms based on the principle that any function could be reproduced by a neural network, which is a powerful proven computational tool that can be used to find the inverse-function of any cryptographic algorithm. The ideas of mutual learning, self learning, and stochastic behavior of neural networks and similar algorithms can be used for different aspects of cryptography, like public-key cryptography, solving the key distribution problem using neural network mutual synchronization, hashing or generation of pseudo-random numbers. Another idea is the ability of a neural network to separate space in non-linear pieces using "bias". It gives different probabilities of activating the neural network or not. This is very useful in the case of Cryptanalysis. Two names are used to design the same domain of research: Neuro-Cryptography and Neural Cryptography. The first work that it is known on this topic can be traced back to 1995 in an IT Master Thesis. == Applications == In 1995, Sebastien Dourlens applied neural networks to cryptanalyze DES by allowing the networks to learn how to invert the S-tables of the DES. The bias in DES studied through Differential Cryptanalysis by Adi Shamir is highlighted. The experiment shows about 50% of the key bits can be found, allowing the complete key to be found in a short time. Hardware application with multi micro-controllers have been proposed due to the easy implementation of multilayer neural networks in hardware. One example of a public-key protocol is given by Khalil Shihab . He describes the decryption scheme and the public key creation that are based on a backpropagation neural network. The encryption scheme and the private key creation process are based on Boolean algebra. This technique has the advantage of small time and memory complexities. A disadvantage is the property of backpropagation algorithms: because of huge training sets, the learning phase of a neural network is very long. Therefore, the use of this protocol is only theoretical so far. == Neural key exchange protocol == The most used protocol for key exchange between two parties A and B in the practice is Diffie–Hellman key exchange protocol. Neural key exchange, which is based on the synchronization of two tree parity machines, should be a secure replacement for this method. Synchronizing these two machines is similar to synchronizing two chaotic oscillators in chaos communications. === Tree parity machine === The tree parity machine is a special type of multi-layer feedforward neural network. It consists of one output neuron, K hidden neurons and K×N input neurons. Inputs to the network take three values: x i j ∈ { − 1 , 0 , + 1 } {\displaystyle x_{ij}\in \left\{-1,0,+1\right\}} The weights between input and hidden neurons take the values: w i j ∈ { − L , . . . , 0 , . . . , + L } {\displaystyle w_{ij}\in \left\{-L,...,0,...,+L\right\}} Output value of each hidden neuron is calculated as a sum of all multiplications of input neurons and these weights: σ i = sgn ⁡ ( ∑ j = 1 N w i j x i j ) {\displaystyle \sigma _{i}=\operatorname {sgn}(\sum _{j=1}^{N}w_{ij}x_{ij})} Signum is a simple function, which returns −1,0 or 1: sgn ⁡ ( x ) = { − 1 if x < 0 , 0 if x = 0 , 1 if x > 0. {\displaystyle \operatorname {sgn}(x)={\begin{cases}-1&{\text{if }}x<0,\\0&{\text{if }}x=0,\\1&{\text{if }}x>0.\end{cases}}} If the scalar product is 0, the output of the hidden neuron is mapped to −1 in order to ensure a binary output value. The output of neural network is then computed as the multiplication of all values produced by hidden elements: τ = ∏ i = 1 K σ i {\displaystyle \tau =\prod _{i=1}^{K}\sigma _{i}} Output of the tree parity machine is binary. === Protocol === Each party (A and B) uses its own tree parity machine. Synchronization of the tree parity machines is achieved in these steps Initialize random weight values Execute these steps until the full synchronization is achieved Generate random input vector X Compute the values of the hidden neurons Compute the value of the output neuron Compare the values of both tree parity machines Outputs are the same: one of the suitable learning rules is applied to the weights Outputs are different: go to 2.1 After the full synchronization is achieved (the weights wij of both tree parity machines are same), A and B can use their weights as keys. This method is known as a bidirectional learning. One of the following learning rules can be used for the synchronization: Hebbian learning rule: w i + = g ( w i + σ i x i Θ ( σ i τ ) Θ ( τ A τ B ) ) {\displaystyle w_{i}^{+}=g(w_{i}+\sigma _{i}x_{i}\Theta (\sigma _{i}\tau )\Theta (\tau ^{A}\tau ^{B}))} Anti-Hebbian learning rule: w i + = g ( w i − σ i x i Θ ( σ i τ ) Θ ( τ A τ B ) ) {\displaystyle w_{i}^{+}=g(w_{i}-\sigma _{i}x_{i}\Theta (\sigma _{i}\tau )\Theta (\tau ^{A}\tau ^{B}))} Random walk: w i + = g ( w i + x i Θ ( σ i τ ) Θ ( τ A τ B ) ) {\displaystyle w_{i}^{+}=g(w_{i}+x_{i}\Theta (\sigma _{i}\tau )\Theta (\tau ^{A}\tau ^{B}))} Where: Θ ( a , b ) = 0 {\displaystyle \Theta (a,b)=0} if a ≠ b {\displaystyle a\neq b} otherwise Θ ( a , b ) = 1 {\displaystyle \Theta (a,b)=1} And: g ( x ) {\displaystyle g(x)} is a function that keeps the w i {\displaystyle w_{i}} in the range { − L , − L + 1 , . . . , 0 , . . . , L − 1 , L } {\displaystyle \{-L,-L+1,...,0,...,L-1,L\}} === Attacks and security of this protocol === In every attack it is considered, that the attacker E can eavesdrop messages between the parties A and B, but does not have an opportunity to change them. ==== Brute force ==== To provide a brute force attack, an attacker has to test all possible keys (all possible values of weights wij). By K hidden neurons, K×N input neurons and boundary of weights L, this gives (2L+1)KN possibilities. For example, the configuration K = 3, L = 3 and N = 100 gives us 310253 key possibilities, making the attack impossible with today's computer power. ==== Learning with own tree parity machine ==== One of the basic attacks can be provided by an attacker, who owns the same tree parity machine as the parties A and B. He wants to synchronize his tree parity machine with these two parties. In each step there are three situations possible: Output(A) ≠ Output(B): None of the parties updates its weights. Output(A) = Output(B) = Output(E): All the three parties update weights in their tree parity machines. Output(A) = Output(B) ≠ Output(E): Parties A and B update their tree parity machines, but the attacker can not do that. Because of this situation his learning is slower than the synchronization of parties A and B. It has been proven, that the synchronization of two parties is faster than learning of an attacker. It can be improved by increasing of the synaptic depth L of the neural network. That gives this protocol enough security and an attacker can find out the key only with small probability. ==== Other attacks ==== For conventional cryptographic systems, we can improve the security of the protocol by increasing of the key length. In the case of neural cryptography, we improve it by increasing of the synaptic depth L of the neural networks. Changing this parameter increases the cost of a successful attack exponentially, while the effort for the users grows polynomially. Therefore, breaking the security of neural key exchange belongs to the complexity class NP. Alexander Klimov, Anton Mityaguine, and Adi Shamir say that the original neural synchronization scheme can be broken by at least three different attacks—geometric, probabilistic analysis, and using genetic algorithms. Even though this particular implementation is insecure, the ideas behind chaotic synchronization could potentially lead to a secure implementation. === Permutation parity machine === The permutation parity machine is a binary variant of the tree parity machine. It consists of one input layer, one hidden layer and one output layer. The number of neurons in the output layer depends on the number of hidden units K. Each hidden neuron has N binary input neurons: x i j ∈ { 0 , 1 } {\displaystyle x_{ij}\in \left\{0,1\right\}} The weights between input and hidden neurons are also binary: w i j ∈ { 0 , 1 } {\displaystyle w_{ij}\in \left\{0,1\right\}} Output value of each hidden neuron is calculated as a sum of all exclusive disjunctions (exclusive or) of input neurons and these weights: σ i = θ N ( ∑ j = 1 N w i j ⊕ x i j ) {\displaystyle \sigma _{i}=\theta _{N}(\sum _{j=1}^{N}w_{ij}\oplus x_{ij})} (⊕ means XOR). Th

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  Evolutionary programming

  Evolutionary programming is an evolutionary algorithm, where a share of new population is created by mutation of previous population without crossover. Evolutionary programming differs from evolution strategy ES( μ + λ {\displaystyle \mu +\lambda } ) in one detail. All individuals are selected for the new population, while in ES( μ + λ {\displaystyle \mu +\lambda } ), every individual has the same probability to be selected. It is one of the four major evolutionary algorithm paradigms. == History == It was first used by Lawrence J. Fogel in the US in 1960 in order to use simulated evolution as a learning process aiming to generate artificial intelligence. It was used to evolve finite-state machines as predictors.

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  List of JavaScript libraries

  This is a list of notable JavaScript libraries. == Constraint programming == Cassowary (software) CHR.js == DOM (manipulation) oriented == Google Polymer Dojo Toolkit jQuery MooTools Prototype JavaScript Framework == Graphical/visualization (canvas, SVG, or WebGL related) == AnyChart Apache ECharts Babylon.js Chart.js Cytoscape D3.js Dojo Toolkit FusionCharts Google Charts JointJS p5.js Plotly.js Processing.js Raphaël RGraph SWFObject Teechart Three.js Velocity.js Verge3D Webix == GUI (Graphical user interface) and widget related == Angular (application platform) by Google AngularJS by Google Bootstrap Dojo Widgets Ext JS by Sencha Foundation by ZURB jQuery UI jQWidgets OpenUI5 by SAP Polymer (library) by Google qooxdoo React.js by Meta/Facebook Vue.js Webix WinJS Svelte === No longer actively developed === Glow Lively Kernel Script.aculo.us YUI Library == Pure JavaScript/Ajax == Google Closure Library JsPHP Microsoft's Ajax library MochiKit PDF.js Socket.IO Spry framework Underscore.js == Template systems == jQuery Mobile Mustache Jinja-JS Twig.js == Unit testing == Jasmine Mocha QUnit == Test automation == Playwright Cypress == Web-application related (MVC, MVVM) == Angular (application platform) by Google AngularJS by Google Backbone.js Echo Ember.js Enyo Express.js Ext JS Google Web Toolkit JsRender/JsViews Knockout Meteor Mojito MooTools Next.js Nuxt.js OpenUI5 by SAP Polymer (library) by Google Prototype JavaScript Framework qooxdoo React.js SproutCore svelte Vue.js == Other == Blockly Cannon.js MathJax Modernizr TensorFlow Brain.js

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  Quadratic unconstrained binary optimization

  Quadratic unconstrained binary optimization (QUBO), also known as unconstrained binary quadratic programming (UBQP), is a combinatorial optimization problem with a wide range of applications from finance and economics to machine learning. QUBO is an NP hard problem, and for many classical problems from theoretical computer science, like maximum cut, graph coloring and the partition problem, embeddings into QUBO have been formulated. Embeddings for machine learning models include support-vector machines, clustering and probabilistic graphical models. Moreover, due to its close connection to Ising models, QUBO constitutes a central problem class for adiabatic quantum computation, where it is solved through a physical process called quantum annealing. == Definition == Let B = { 0 , 1 } {\displaystyle \mathbb {B} =\lbrace 0,1\rbrace } the set of binary digits (or bits), then B n {\displaystyle \mathbb {B} ^{n}} is the set of binary vectors of fixed length n ∈ N {\displaystyle n\in \mathbb {N} } . Given a symmetric or upper triangular matrix Q ∈ R n × n {\displaystyle {\boldsymbol {Q}}\in \mathbb {R} ^{n\times n}} , whose entries Q i j {\displaystyle Q_{ij}} define a weight for each pair of indices i , j ∈ { 1 , … , n } {\displaystyle i,j\in \lbrace 1,\dots ,n\rbrace } , we can define the function f Q : B n → R {\displaystyle f_{\boldsymbol {Q}}:\mathbb {B} ^{n}\rightarrow \mathbb {R} } that assigns a value to each binary vector x {\displaystyle {\boldsymbol {x}}} through f Q ( x ) = x ⊺ Q x = ∑ i = 1 n ∑ j = 1 n Q i j x i x j . {\displaystyle f_{\boldsymbol {Q}}({\boldsymbol {x}})={\boldsymbol {x}}^{\intercal }{\boldsymbol {Qx}}=\sum _{i=1}^{n}\sum _{j=1}^{n}Q_{ij}x_{i}x_{j}.} Alternatively, the linear and quadratic parts can be separated as f Q ′ , q ( x ) = x ⊺ Q ′ x + q ⊺ x , {\displaystyle f_{{\boldsymbol {Q}}',{\boldsymbol {q}}}({\boldsymbol {x}})={\boldsymbol {x}}^{\intercal }{\boldsymbol {Q}}'{\boldsymbol {x}}+{\boldsymbol {q}}^{\intercal }{\boldsymbol {x}},} where Q ′ ∈ R n × n {\displaystyle {\boldsymbol {Q}}'\in \mathbb {R} ^{n\times n}} and q ∈ R n {\displaystyle {\boldsymbol {q}}\in \mathbb {R} ^{n}} . This is equivalent to the previous definition through Q = Q ′ + diag ⁡ [ q ] {\displaystyle {\boldsymbol {Q}}={\boldsymbol {Q}}'+\operatorname {diag} [{\boldsymbol {q}}]} using the diag operator, exploiting that x = x ⋅ x {\displaystyle x=x\cdot x} for all binary values x {\displaystyle x} . Intuitively, the weight Q i j {\displaystyle Q_{ij}} is added if both x i = 1 {\displaystyle x_{i}=1} and x j = 1 {\displaystyle x_{j}=1} . The QUBO problem consists of finding a binary vector x ∗ {\displaystyle {\boldsymbol {x}}^{}} that minimizes f Q {\displaystyle f_{\boldsymbol {Q}}} , i.e., ∀ x ∈ B n : f Q ( x ∗ ) ≤ f Q ( x ) {\displaystyle \forall {\boldsymbol {x}}\in \mathbb {B} ^{n}:~f_{\boldsymbol {Q}}({\boldsymbol {x}}^{})\leq f_{\boldsymbol {Q}}({\boldsymbol {x}})} . In general, x ∗ {\displaystyle {\boldsymbol {x}}^{}} is not unique, meaning there may be a set of minimizing vectors with equal value w.r.t. f Q {\displaystyle f_{\boldsymbol {Q}}} . The complexity of QUBO arises from the number of candidate binary vectors to be evaluated, as | B n | = 2 n {\displaystyle \left|\mathbb {B} ^{n}\right|=2^{n}} grows exponentially in n {\displaystyle n} . Sometimes, QUBO is defined as the problem of maximizing f Q {\displaystyle f_{\boldsymbol {Q}}} , which is equivalent to minimizing f − Q = − f Q {\displaystyle f_{-{\boldsymbol {Q}}}=-f_{\boldsymbol {Q}}} . == Properties == QUBO is scale invariant for positive factors α > 0 {\displaystyle \alpha >0} , which leave the optimum x ∗ {\displaystyle {\boldsymbol {x}}^{}} unchanged: f α Q ( x ) = x ⊺ ( α Q ) x = α ( x ⊺ Q x ) = α f Q ( x ) {\displaystyle f_{\alpha {\boldsymbol {Q}}}({\boldsymbol {x}})={\boldsymbol {x}}^{\intercal }(\alpha {\boldsymbol {Q}}){\boldsymbol {x}}=\alpha ({\boldsymbol {x}}^{\intercal }{\boldsymbol {Qx}})=\alpha f_{\boldsymbol {Q}}({\boldsymbol {x}})} . In its general form, QUBO is NP-hard and cannot be solved efficiently by any known polynomial-time algorithm. However, there are polynomially-solvable special cases, where Q {\displaystyle {\boldsymbol {Q}}} has certain properties, for example: If all coefficients are positive, the optimum is trivially x ∗ = ( 0 , … , 0 ) ⊺ {\displaystyle {\boldsymbol {x}}^{}=(0,\dots ,0)^{\intercal }} . Similarly, if all coefficients are negative, the optimum is x ∗ = ( 1 , … , 1 ) ⊺ {\displaystyle {\boldsymbol {x}}^{}=(1,\dots ,1)^{\intercal }} . If Q {\displaystyle {\boldsymbol {Q}}} is diagonal, the bits can be optimized independently, and the problem is solvable in O ( n ) {\displaystyle {\mathcal {O}}(n)} . The optimal variable assignments are simply x i ∗ = 1 {\displaystyle x_{i}^{}=1} if Q i i < 0 {\displaystyle Q_{ii}<0} , and x i ∗ = 0 {\displaystyle x_{i}^{}=0} otherwise. If all off-diagonal elements of Q {\displaystyle {\boldsymbol {Q}}} are non-positive, the corresponding QUBO problem is solvable in polynomial time. QUBO can be solved using integer linear programming solvers like CPLEX or Gurobi Optimizer. This is possible since QUBO can be reformulated as a linear constrained binary optimization problem. To achieve this, substitute the product x i x j {\displaystyle x_{i}x_{j}} by an additional binary variable z i j ∈ B {\displaystyle z_{ij}\in \mathbb {B} } and add the constraints x i ≥ z i j {\displaystyle x_{i}\geq z_{ij}} , x j ≥ z i j {\displaystyle x_{j}\geq z_{ij}} and x i + x j − 1 ≤ z i j {\displaystyle x_{i}+x_{j}-1\leq z_{ij}} . Note that z i j {\displaystyle z_{ij}} can also be relaxed to continuous variables within the bounds zero and one. == Applications == QUBO is a structurally simple, yet computationally hard optimization problem. It can be used to encode a wide range of optimization problems from various scientific areas. === Maximum Cut === Given a graph G = ( V , E ) {\displaystyle G=(V,E)} with vertex set V = { 1 , … , n } {\displaystyle V=\lbrace 1,\dots ,n\rbrace } and edges E ⊆ V × V {\displaystyle E\subseteq V\times V} , the maximum cut (max-cut) problem consists of finding two subsets S , T ⊆ V {\displaystyle S,T\subseteq V} with T = V ∖ S {\displaystyle T=V\setminus S} , such that the number of edges between S {\displaystyle S} and T {\displaystyle T} is maximized. The more general weighted max-cut problem assumes edge weights w i j ≥ 0 ∀ i , j ∈ V {\displaystyle w_{ij}\geq 0~\forall i,j\in V} , with ( i , j ) ∉ E ⇒ w i j = 0 {\displaystyle (i,j)\notin E\Rightarrow w_{ij}=0} , and asks for a partition S , T ⊆ V {\displaystyle S,T\subseteq V} that maximizes the sum of edge weights between S {\displaystyle S} and T {\displaystyle T} , i.e., max S ⊆ V ∑ i ∈ S , j ∉ S w i j . {\displaystyle \max _{S\subseteq V}\sum _{i\in S,j\notin S}w_{ij}.} By setting w i j = 1 {\displaystyle w_{ij}=1} for all ( i , j ) ∈ E {\displaystyle (i,j)\in E} this becomes equivalent to the original max-cut problem above, which is why we focus on this more general form in the following. For every vertex in i ∈ V {\displaystyle i\in V} we introduce a binary variable x i {\displaystyle x_{i}} with the interpretation x i = 0 {\displaystyle x_{i}=0} if i ∈ S {\displaystyle i\in S} and x i = 1 {\displaystyle x_{i}=1} if i ∈ T {\displaystyle i\in T} . As T = V ∖ S {\displaystyle T=V\setminus S} , every i {\displaystyle i} is in exactly one set, meaning there is a 1:1 correspondence between binary vectors x ∈ B n {\displaystyle {\boldsymbol {x}}\in \mathbb {B} ^{n}} and partitions of V {\displaystyle V} into two subsets. We observe that, for any i , j ∈ V {\displaystyle i,j\in V} , the expression x i ( 1 − x j ) + ( 1 − x i ) x j {\displaystyle x_{i}(1-x_{j})+(1-x_{i})x_{j}} evaluates to 1 if and only if i {\displaystyle i} and j {\displaystyle j} are in different subsets, equivalent to logical XOR. Let W ∈ R + n × n {\displaystyle {\boldsymbol {W}}\in \mathbb {R} _{+}^{n\times n}} with W i j = w i j ∀ i , j ∈ V {\displaystyle W_{ij}=w_{ij}~\forall i,j\in V} . By extending above expression to matrix-vector form we find that x ⊺ W ( 1 − x ) + ( 1 − x ) ⊺ W x = − 2 x ⊺ W x + ( W 1 + W ⊺ 1 ) ⊺ x {\displaystyle {\boldsymbol {x}}^{\intercal }{\boldsymbol {W}}({\boldsymbol {1}}-{\boldsymbol {x}})+({\boldsymbol {1}}-{\boldsymbol {x}})^{\intercal }{\boldsymbol {Wx}}=-2{\boldsymbol {x}}^{\intercal }{\boldsymbol {Wx}}+({\boldsymbol {W1}}+{\boldsymbol {W}}^{\intercal }{\boldsymbol {1}})^{\intercal }{\boldsymbol {x}}} is the sum of weights of all edges between S {\displaystyle S} and T {\displaystyle T} , where 1 = ( 1 , 1 , … , 1 ) ⊺ ∈ R n {\displaystyle {\boldsymbol {1}}=(1,1,\dots ,1)^{\intercal }\in \mathbb {R} ^{n}} . As this is a quadratic function over x {\displaystyle {\boldsymbol {x}}} , it is a QUBO problem whose parameter matrix we can read from above expression as Q = 2 W − diag ⁡ [ W 1 + W ⊺ 1 ] , {\displaystyle {\boldsymbol {Q}}=2{\boldsymbol {W}}-\operatorname {diag} [{\boldsymbol {W1}}+{\boldsymbol {W}}^{\intercal }{\bol

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  Sum of absolute transformed differences

  The sum of absolute transformed differences (SATD) is a block matching criterion widely used in fractional motion estimation for video compression. It works by taking a frequency transform, usually a Hadamard transform, of the differences between the pixels in the original block and the corresponding pixels in the block being used for comparison. The transform itself is often of a small block rather than the entire macroblock. For example, in x264, a series of 4×4 blocks are transformed rather than doing the more processor-intensive 16×16 transform. == Comparison to other metrics == SATD is slower than the sum of absolute differences (SAD), both due to its increased complexity and the fact that SAD-specific MMX and SSE2 instructions exist, while there are no such instructions for SATD. However, SATD can still be optimized considerably with SIMD instructions on most modern CPUs. The benefit of SATD is that it more accurately models the number of bits required to transmit the residual error signal. As such, it is often used in video compressors, either as a way to drive and estimate rate explicitly, such as in the Theora encoder (since 1.1 alpha2), as an optional metric used in wide motion searches, such as in the Microsoft VC-1 encoder, or as a metric used in sub-pixel refinement, such as in x264.

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