AI Excel Spreadsheet Maker

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  • Pythia (machine learning)

    Pythia (machine learning)

    Pythia is an ancient text restoration model that recovers missing characters from damaged text input using deep neural networks. It was created by Yannis Assael, Thea Sommerschield, and Jonathan Prag, researchers from Google DeepMind and the University of Oxford. To study the society and the history of ancient civilisations, ancient history relies on disciplines such as epigraphy, the study of ancient inscribed texts. Hundreds of thousands of these texts, known as inscriptions, have survived to our day, but are often damaged over the centuries. Illegible parts of the text must then be restored by specialists, called epigraphists, in order to extract meaningful information from the text and use it to expand our knowledge of the context in which the text was written. Pythia takes as input the damaged text, and is trained to return hypothesised restorations of ancient Greek inscriptions, working as an assistive aid for ancient historians. Its neural network architecture works at both the character- and word-level, thereby effectively handling long-term context information, and dealing efficiently with incomplete word representations. Pythia is applicable to any discipline dealing with ancient texts (philology, papyrology, codicology) and can work in any language (ancient or modern).

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  • Semantic mapping (statistics)

    Semantic mapping (statistics)

    Semantic mapping (SM) is a statistical method for dimensionality reduction (the transformation of data from a high-dimensional space into a low-dimensional space). SM can be used in a set of multidimensional vectors of features to extract a few new features that preserves the main data characteristics. SM performs dimensionality reduction by clustering the original features in semantic clusters and combining features mapped in the same cluster to generate an extracted feature. Given a data set, this method constructs a projection matrix that can be used to map a data element from a high-dimensional space into a reduced dimensional space. SM can be applied in construction of text mining and information retrieval systems, as well as systems managing vectors of high dimensionality. SM is an alternative to random mapping, principal components analysis and latent semantic indexing methods.

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  • LogitBoost

    LogitBoost

    In machine learning and computational learning theory, LogitBoost is a boosting algorithm formulated by Jerome Friedman, Trevor Hastie, and Robert Tibshirani. The original paper casts the AdaBoost algorithm into a statistical framework. Specifically, if one considers AdaBoost as a generalized additive model and then applies the cost function of logistic regression, one can derive the LogitBoost algorithm. == Minimizing the LogitBoost cost function == LogitBoost can be seen as a convex optimization. Specifically, given that we seek an additive model of the form f = ∑ t α t h t {\displaystyle f=\sum _{t}\alpha _{t}h_{t}} the LogitBoost algorithm minimizes the logistic loss: ∑ i log ⁡ ( 1 + e − y i f ( x i ) ) {\displaystyle \sum _{i}\log \left(1+e^{-y_{i}f(x_{i})}\right)}

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  • Generalized blockmodeling

    Generalized blockmodeling

    In generalized blockmodeling, the blockmodeling is done by "the translation of an equivalence type into a set of permitted block types", which differs from the conventional blockmodeling, which is using the indirect approach. It's a special instance of the direct blockmodeling approach. Generalized blockmodeling was introduced in 1994 by Patrick Doreian, Vladimir Batagelj and Anuška Ferligoj. == Definition == Generalized blockmodeling approach is a direct one, "where the optimal partition(s) is (are) identified based on minimal values of a compatible criterion function defined by the difference between empirical blocks and corresponding ideal blocks". At the same time, the much broader set of block types is introduced (while in conventional blockmodeling only certain types are used). The conventional blockmodeling is inductive due to nonspecification of neither the clusters or the location of block types, while in generalized blockmodeling the blockmodel is specified with more detail than just the permition of certain block types (e.g., prespecification). Further, it's possible to define departures from the permitted (ideal) blocktype, using criterion function. Using local optimization procedure, firstly the initial clustering (with specified number of clusters is done, based on random creation. How the clusters are neighboring to each other, is based on two transformations: 1) a vertex is moved from one to another cluster or 2) a pair of vertices is interchanged between two different clusters. This process of transformation steps is repeated many times, until only the best fitting partitions (with the minimized value of the criterion function) are kept as blockmodels for the future exploration of the network. Different types of generalized blockmodeling are: generalized binary blockmodeling, generalized valued blockmodeling and generalized homogeneity blockmodeling. == Benefits == According to Patrick Doreian, the benefits of generalized blockmodeling, are as follows: usage of explicit criterion function, compatible with a given type of equivalence, results to in-built measure of fit, which is integral to the establishment of the blockmodels (in conventional blockmodeling, there is no compelling and coherent measures of fit); partitions, based on generalized blockmodeling, regularly outperform and never perform less well than the partitions, based on conventional approach; with generalized blockmodeling it's possible to specify new types of blockmodels; this potentially unlimited set of new block types also results in permittion of inclusion of substantively driven blockmodels; in generalized blockmodeling, the specification of the block types and the location of some of them in the blockmodel is possible; researcher can speficy which (pair of) vertices must be (not) clustered together; this approach also allows the imposition of penalties, resulting into identification of empirical null blocks without inconsistencies with a corresponding ideal null block. == Problems == According to Doreian, the problems of generalized blockmodeling, are as follows: unknown sensitivity to particular data features, examination of boundary problems, computationally burdensome, which results in a constraint regarding practical network size (generalized blockmodeling is thus primarily used to analyse smaller networks (below 100 units)), identifying structure from incomplete network information, most of generalized blockmodeling is based on binary networks, but there is also development in the field of valued networks, criterion function is minimized for a specified blockmodel, with results in issues of evaluating statistically, based on the structural data alone, problems regarding three dimensional network data, problems regarding the evolution of fundamental network structure. == Book == The book with the same title, Generalized blockmodeling, written by Patrick Doreian, Vladimir Batagelj and Anuška Ferligoj, was in 2007 awarded the Harrison White Outstanding Book Award by the Mathematical Sociology Section of American Sociological Association.

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  • AlternativeTo

    AlternativeTo

    AlternativeTo is a website which lists alternatives to web-based software, desktop computer software, and mobile apps, and sorts the alternatives by various criteria, including the number of registered users who have "Liked" each of them on AlternativeTo. Users can search the site to find better alternatives to an application they are using or previously have used, including free alternatives such as free web applications (cloud computing) which don't require any installation and can be accessed from any browser. == Differences == Unlike a number of other software directory websites, the software is not arranged into categories, but each individual piece of software has its own list of alternatives. However, users can also search by tag to find software, which offers an alternative way of finding related software. Users can also narrow their search by focusing on particular platforms and license types (such as "free for non-commercial use"). AlternativeTo lists basic information such as platform and license type at the top of each entry, but does not have comparison tables listing software features side by side. AlternativeTo does not host software for download but it provides links to official websites to where you can download or buy them. AlternativeTo allows anyone to register and suggest new alternatives, or to update the information held about existing entries. Suggestions and alterations are reviewed before being made publicly visible. Users can register using either email and password or OpenID. Login with Facebook has been discontinued. As AlternativeTo is itself a web application, it even has a page for alternatives to itself. == Features == Tweets from anyone mentioning particular pieces of software are also pulled in dynamically from Twitter. Each application has an RSS feed for notifying users of newly listed alternatives to that application. After a user has clicked the Like button next to an application, they are offered the opportunity to tell their friends on Facebook or their followers on Twitter that they liked it. The site also has a forum. For software developers, a JSON API used to be available, but has been taken down indefinitely.

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  • Multiclass classification

    Multiclass classification

    In machine learning and statistical classification, multiclass classification or multinomial classification is the problem of classifying instances into one of three or more classes (classifying instances into one of two classes is called binary classification). For example, deciding on whether an image is showing a banana, peach, orange, or an apple is a multiclass classification problem, with four possible classes (banana, peach, orange, apple), while deciding on whether an image contains an apple or not is a binary classification problem (with the two possible classes being: apple, no apple). While many classification algorithms (e.g., decision trees, k-NN, neural networks and multinomial logistic regression) naturally permit the use of more than two classes, some are by nature binary algorithms (e.g., classical binary support vector machine) and require decomposition strategies such as one-vs-all, one-vs-one, or ECOC to solve multiclass problems. Multiclass classification should not be confused with multi-label classification, where multiple labels are to be predicted for each instance (e.g., predicting that an image contains both an apple and an orange, in the previous example). == Better-than-random multiclass models == From the confusion matrix of a multiclass model, we can determine whether a model does better than chance. Let K ≥ 3 {\displaystyle K\geq 3} be the number of classes, O {\displaystyle {\mathcal {O}}} a set of observations, y ^ : O → { 1 , . . . , K } {\displaystyle {\hat {y}}:{\mathcal {O}}\to \{1,...,K\}} a model of the target variable y : O → { 1 , . . . , K } {\displaystyle y:{\mathcal {O}}\to \{1,...,K\}} and n i , j {\displaystyle n_{i,j}} be the number of observations in the set { y = i } ∩ { y ^ = j } {\displaystyle \{y=i\}\cap \{{\hat {y}}=j\}} . We note n i . = ∑ j n i , j {\displaystyle n_{i.}=\sum _{j}n_{i,j}} , n . j = ∑ i n i , j {\displaystyle n_{.j}=\sum _{i}n_{i,j}} , n = ∑ j n . j = ∑ i n i . {\displaystyle n=\sum _{j}n_{.j}=\sum _{i}n_{i.}} , λ i = n i . n {\displaystyle \lambda _{i}={\frac {n_{i.}}{n}}} and μ j = n . j n {\displaystyle \mu _{j}={\frac {n_{.j}}{n}}} . It is assumed that the confusion matrix ( n i , j ) i , j {\displaystyle (n_{i,j})_{i,j}} contains at least one non-zero entry in each row, that is λ i > 0 {\displaystyle \lambda _{i}>0} for any i {\displaystyle i} . Finally we call "normalized confusion matrix" the matrix of conditional probabilities ( P ( y ^ = j ∣ y = i ) ) i , j = ( n i , j n i . ) i , j {\displaystyle (\mathbb {P} ({\hat {y}}=j\mid y=i))_{i,j}=\left({\frac {n_{i,j}}{n_{i.}}}\right)_{i,j}} . === Intuitive explanation === The lift is a way of measuring the deviation from independence of two events A {\displaystyle A} and B {\displaystyle B} : L i f t ( A , B ) = P ( A ∩ B ) P ( A ) P ( B ) = P ( A ∣ B ) P ( A ) = P ( B ∣ A ) P ( B ) {\displaystyle \mathrm {Lift} (A,B)={\frac {\mathbb {P} (A\cap B)}{\mathbb {P} (A)\mathbb {P} (B)}}={\frac {\mathbb {P} (A\mid B)}{\mathbb {P} (A)}}={\frac {\mathbb {P} (B\mid A)}{\mathbb {P} (B)}}} We have L i f t ( A , B ) > 1 {\displaystyle \mathrm {Lift} (A,B)>1} if and only if events A {\displaystyle A} and B {\displaystyle B} occur simultaneously with a greater probability than if they were independent. In other words, if one of the two events occurs, the probability of observing the other event increases. A first condition to satisfy is to have L i f t ( y = i , y ^ = i ) ≥ 1 {\displaystyle \mathrm {Lift} (y=i,{\hat {y}}=i)\geq 1} for any i {\displaystyle i} . And the quality of a model (better or worse than chance) does not change if we over- or undersample the dataset, that is if we multiply each row R i {\displaystyle R_{i}} of the confusion matrix by a constant c i {\displaystyle c_{i}} . Thus the second condition is that the necessary and sufficient conditions for doing better than chance need only depend on the normalized confusion matrix. The condition on lifts can be reformulated with One versus Rest binary models : for any i {\displaystyle i} , we define the binary target variable y i {\displaystyle y_{i}} which is the indicator of event { y = i } {\displaystyle \{y=i\}} , and the binary model y ^ i {\displaystyle {\hat {y}}_{i}} of y i {\displaystyle y_{i}} which is the indicator of event { y ^ = i } {\displaystyle \{{\hat {y}}=i\}} . Each of the y ^ i {\displaystyle {\hat {y}}_{i}} models is a "One versus Rest" model. L i f t ( y = i , y ^ = i ) {\displaystyle \mathrm {Lift} (y=i,{\hat {y}}=i)} only depends on the events { y = i } {\displaystyle \{y=i\}} and { y ^ = i } {\displaystyle \{{\hat {y}}=i\}} , so merging or not merging the other classes doesn't change its value. We therefore have L i f t ( y = i , y ^ = i ) = L i f t ( y i = 1 , y ^ i = 1 ) {\displaystyle \mathrm {Lift} (y=i,{\hat {y}}=i)=\mathrm {Lift} (y_{i}=1,{\hat {y}}_{i}=1)} and the first condition is that all binary One versus Rest models are better than chance. ==== Example ==== If K = 2 {\displaystyle K=2} and 2 is the class of interest , the normalized confusion matrix is ( s p e c i f i c i t y 1 − s p e c i f i c i t y 1 − s e n s i t i v i t y s e n s i t i v i t y ) {\displaystyle {\begin{pmatrix}\mathrm {specificity} &1-\mathrm {specificity} \\1-\mathrm {sensitivity} &\mathrm {sensitivity} \end{pmatrix}}} and we have L i f t ( y = 1 , y ^ = 1 ) − 1 = P ( y = y ^ = 1 ) λ 1 μ 1 − 1 = n 1 , 1 n n 1. n .1 − 1 {\displaystyle \mathrm {Lift} (y=1,{\hat {y}}=1)-1={\frac {\mathbb {P} (y={\hat {y}}=1)}{\lambda _{1}\mu _{1}}}-1={\frac {n_{1,1}n}{n_{1.}n_{.1}}}-1} = n 1 , 1 ( n 1 , 1 + n 1 , 2 + n 2 , 1 + n 2 , 2 ) − ( n 1 , 1 + n 1 , 2 ) ( n 1 , 1 + n 2 , 1 ) n 1. n .1 = n 1 , 1 n 2 , 2 − n 1 , 2 n 2 , 1 n 1. n .1 {\displaystyle ={\frac {n_{1,1}(n_{1,1}+n_{1,2}+n_{2,1}+n_{2,2})-(n_{1,1}+n_{1,2})(n_{1,1}+n_{2,1})}{n_{1.}n_{.1}}}={\frac {n_{1,1}n_{2,2}-n_{1,2}n_{2,1}}{n_{1.}n_{.1}}}} . Thus L i f t ( y = 1 , y ^ = 1 ) ≥ 1 ⟺ n 1 , 1 n 2 , 2 − n 1 , 2 n 2 , 1 ≥ 0 {\displaystyle \mathrm {Lift} (y=1,{\hat {y}}=1)\geq 1\iff n_{1,1}n_{2,2}-n_{1,2}n_{2,1}\geq 0} . Similarly, by swapping the roles of 1 and 2, we find that L i f t ( y = 2 , y ^ = 2 ) ≥ 1 ⟺ n 1 , 1 n 2 , 2 − n 1 , 2 n 2 , 1 ≥ 0 {\displaystyle \mathrm {Lift} (y=2,{\hat {y}}=2)\geq 1\iff n_{1,1}n_{2,2}-n_{1,2}n_{2,1}\geq 0} . Dividing by n 1. n 2. {\displaystyle n_{1.}n_{2.}} we find that the necessary and sufficient condition on the normalized confusion matrix is s e n s i t i v i t y s p e c i f i c i t y − ( 1 − s e n s i t i v i t y ) ( 1 − s p e c i f i c i t y ) ≥ 0 ⟺ s e n s i t i v i t y + s p e c i f i c i t y − 1 ≥ 0 ⟺ J ≥ 0 {\displaystyle \mathrm {sensitivity} \ \mathrm {specificity} -(1-\mathrm {sensitivity} )(1-\mathrm {specificity} )\geq 0\iff \mathrm {sensitivity} +\mathrm {specificity} -1\geq 0\iff J\geq 0} . This brings us back to the classical binary condition: Youden's J must be positive (or zero for random models). === Random models === A random model is a model that is independent of the target variable. This property is easily reformulated with the confusion matrix. This proposition shows that the model y ^ {\displaystyle {\hat {y}}} of y {\displaystyle y} is uninformative if and only if there are two families of numbers ( α i ) i {\displaystyle (\alpha _{i})_{i}} and ( β j ) j {\displaystyle (\beta _{j})_{j}} such that P ( { y = i } ∩ { y ^ = j } ) = α i β j {\displaystyle \mathbb {P} (\{y=i\}\cap \{{\hat {y}}=j\})=\alpha _{i}\beta _{j}} for any i {\displaystyle i} and j {\displaystyle j} . === Multiclass likelihood ratios and diagnostic odds ratios === We define generalized likelihood ratios calculated from the normalized confusion matrix: for any i {\displaystyle i} and j ≠ i {\displaystyle j\not =i} , let L R i , j = P ( y ^ = j ∣ y = j ) P ( y ^ = j ∣ y = i ) {\displaystyle \mathrm {LR} _{i,j}={\frac {\mathbb {P} ({\hat {y}}=j\mid y=j)}{\mathbb {P} ({\hat {y}}=j\mid y=i)}}} . When K = 2 {\displaystyle K=2} , if 2 is the class of interest,, we find the classical likelihood ratios L R 1 , 2 = L R + {\displaystyle \mathrm {LR} _{1,2}=\mathrm {LR} _{+}} and L R 2 , 1 = 1 L R − {\displaystyle \mathrm {LR} _{2,1}={\frac {1}{\mathrm {LR} _{-}}}} . Multiclass diagnostic odds ratios can also be defined using the formula D O R i , j = D O R j , i = L R i , j L R j , i = n i , i n j , j n i , j n j , i = P ( y ^ = j ∣ y = j ) / P ( y ^ = i ∣ y = j ) P ( y ^ = j ∣ y = i ) / P ( y ^ = i ∣ y = i ) {\displaystyle \mathrm {DOR} _{i,j}=\mathrm {DOR} _{j,i}=\mathrm {LR} _{i,j}\mathrm {LR} _{j,i}={\frac {n_{i,i}n_{j,j}}{n_{i,j}n_{j,i}}}={\frac {\mathbb {P} ({\hat {y}}=j\mid y=j)/\mathbb {P} ({\hat {y}}=i\mid y=j)}{\mathbb {P} ({\hat {y}}=j\mid y=i)/\mathbb {P} ({\hat {y}}=i\mid y=i)}}} We saw above that a better-than-chance model (or a random model) must verify L i f t ( y = i , y ^ = i ) ≥ 1 {\displaystyle \mathrm {Lift} (y=i,{\hat {y}}=i)\geq 1} for any i {\displaystyle i} and λ i {\displaystyle \lambda _{i}} . According to the previous corollary, likelihood ratios are thus greater

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  • Nearest centroid classifier

    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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  • CN2 algorithm

    CN2 algorithm

    The CN2 induction algorithm is a learning algorithm for rule induction. It is designed to work even when the training data is imperfect. It is based on ideas from the AQ algorithm and the ID3 algorithm. As a consequence it creates a rule set like that created by AQ but is able to handle noisy data like ID3. == Description of algorithm == The algorithm must be given a set of examples, TrainingSet, which have already been classified in order to generate a list of classification rules. A set of conditions, SimpleConditionSet, which can be applied, alone or in combination, to any set of examples is predefined to be used for the classification. routine CN2(TrainingSet) let the ClassificationRuleList be empty repeat let the BestConditionExpression be Find_BestConditionExpression(TrainingSet) if the BestConditionExpression is not nil then let the TrainingSubset be the examples covered by the BestConditionExpression remove from the TrainingSet the examples in the TrainingSubset let the MostCommonClass be the most common class of examples in the TrainingSubset append to the ClassificationRuleList the rule 'if ' the BestConditionExpression ' then the class is ' the MostCommonClass until the TrainingSet is empty or the BestConditionExpression is nil return the ClassificationRuleList routine Find_BestConditionExpression(TrainingSet) let the ConditionalExpressionSet be empty let the BestConditionExpression be nil repeat let the TrialConditionalExpressionSet be the set of conditional expressions, {x and y where x belongs to the ConditionalExpressionSet and y belongs to the SimpleConditionSet}. remove all formulae in the TrialConditionalExpressionSet that are either in the ConditionalExpressionSet (i.e., the unspecialized ones) or null (e.g., big = y and big = n) for every expression, F, in the TrialConditionalExpressionSet if F is statistically significant and F is better than the BestConditionExpression by user-defined criteria when tested on the TrainingSet then replace the current value of the BestConditionExpression by F while the number of expressions in the TrialConditionalExpressionSet > user-defined maximum remove the worst expression from the TrialConditionalExpressionSet let the ConditionalExpressionSet be the TrialConditionalExpressionSet until the ConditionalExpressionSet is empty return the BestConditionExpression

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  • Service-oriented software engineering

    Service-oriented software engineering

    Service-oriented software engineering (SOSE), also referred to as service engineering, is a software engineering methodology focused on the development of software systems by composition of reusable services (service-orientation) often provided by other service providers. Since it involves composition, it shares many characteristics of component-based software engineering, the composition of software systems from reusable components, but it adds the ability to dynamically locate necessary services at run-time. These services may be provided by others as web services, but the essential element is the dynamic nature of the connection between the service users and the service providers. == Service-oriented interaction pattern == There are three types of actors in a service-oriented interaction: service providers, service users and service registries. They participate in a dynamic collaboration which can vary from time to time. Service providers are software services that publish their capabilities and availability with service registries. Service users are software systems (which may be services themselves) that accomplish some task through the use of services provided by service providers. Service users use service registries to discover and locate the service providers they can use. This discovery and location occurs dynamically when the service user requests them from a service registry.

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  • Kernel principal component analysis

    Kernel principal component analysis

    In the field of multivariate statistics, kernel principal component analysis (kernel PCA) is an extension of principal component analysis (PCA) using techniques of kernel methods. Using a kernel, the originally linear operations of PCA are performed in a reproducing kernel Hilbert space. == Background: Linear PCA == Recall that conventional PCA operates on zero-centered data; that is, 1 N ∑ i = 1 N x i = 0 {\displaystyle {\frac {1}{N}}\sum _{i=1}^{N}\mathbf {x} _{i}=\mathbf {0} } , where x i {\displaystyle \mathbf {x} _{i}} is one of the N {\displaystyle N} multivariate observations. It operates by diagonalizing the covariance matrix, C = 1 N ∑ i = 1 N x i x i ⊤ {\displaystyle C={\frac {1}{N}}\sum _{i=1}^{N}\mathbf {x} _{i}\mathbf {x} _{i}^{\top }} in other words, it gives an eigendecomposition of the covariance matrix: λ v = C v {\displaystyle \lambda \mathbf {v} =C\mathbf {v} } which can be rewritten as λ x i ⊤ v = x i ⊤ C v for i = 1 , … , N {\displaystyle \lambda \mathbf {x} _{i}^{\top }\mathbf {v} =\mathbf {x} _{i}^{\top }C\mathbf {v} \quad {\textrm {for}}~i=1,\ldots ,N} . (See also: Covariance matrix as a linear operator) == Introduction of the Kernel to PCA == To understand the utility of kernel PCA, particularly for clustering, observe that, while N points cannot, in general, be linearly separated in d < N {\displaystyle d Read more →

  • Correlation clustering

    Correlation clustering

    Clustering is the problem of partitioning data points into groups based on similarity or dissimilarity. Correlation clustering is a clustering framework in which a set of objects is partitioned into clusters based on pairwise similarity and dissimilarity information, without requiring the number of clusters to be specified in advance. == Description of the problem == In machine learning, correlation clustering (also known as cluster editing) considers settings in which pairwise similarity or dissimilarity relationships between objects are known. A standard formulation models the input as an unweighted complete graph G = ( V , E ) {\displaystyle G=(V,E)} , where each edge is labeled either + {\displaystyle +} or − {\displaystyle -} (that is, the graph is a signed graph), indicating whether the corresponding endpoints are similar or dissimilar. The goal is to find a clustering (that is, a partition of V {\displaystyle V} ) that either maximizes the number of agreements—the sum of positive edges whose endpoints lie in the same cluster and negative edges whose endpoints lie in different clusters—or minimizes the number of disagreements—the sum of positive edges whose endpoints are separated and negative edges whose endpoints lie in the same cluster. Unlike other clustering methods such as k-means, correlation clustering does not require choosing the number of clusters k {\displaystyle k} in advance. It is not always possible to find a clustering with zero disagreements. For example, consider a triangle graph containing two positive edges and one negative edge. In this case, every clustering incurs at least one disagreement. Such configurations are referred to in the literature as bad triangles. From a computational perspective, optimizing the correlation clustering objective is challenging. The (decision version of the) problem is NP-complete. A large body of subsequent work has developed approximation algorithms for correlation clustering under various assumptions, including complete or general graphs and unweighted or weighted graphs, for both minimization and maximization objectives. This problem is considered one of the fundamental combinatorial optimization problems, and many algorithmic techniques have been developed to address it. The problem has also been studied extensively across multiple disciplines. A comprehensive literature review of early correlation clustering research is provided by Wahid and Hassini. == Formal Definitions == Let G = ( V , E ) {\displaystyle G=(V,E)} be a graph with nodes V {\displaystyle V} and edges E {\displaystyle E} . A clustering of G {\displaystyle G} is a partition of its node set Π = { π 1 , … , π k } {\displaystyle \Pi =\{\pi _{1},\dots ,\pi _{k}\}} with V = π 1 ∪ ⋯ ∪ π k {\displaystyle V=\pi _{1}\cup \dots \cup \pi _{k}} and π i ∩ π j = ∅ {\displaystyle \pi _{i}\cap \pi _{j}=\emptyset } for i ≠ j {\displaystyle i\neq j} . For a given clustering Π {\displaystyle \Pi } , let δ ( Π ) = { { u , v } ∈ E ∣ { u , v } ⊈ π ∀ π ∈ Π } {\displaystyle \delta (\Pi )=\{\{u,v\}\in E\mid \{u,v\}\not \subseteq \pi \;\forall \pi \in \Pi \}} denote the subset of edges of G {\displaystyle G} whose endpoints are in different subsets of the clustering Π {\displaystyle \Pi } . Now, let w : E → R ≥ 0 {\displaystyle w\colon E\to \mathbb {R} _{\geq 0}} be a function that assigns a non-negative weight to each edge of the graph and let E = E + ∪ E − {\displaystyle E=E^{+}\cup E^{-}} be a partition of the edges into attractive ( E + {\displaystyle E^{+}} ) and repulsive ( E − {\displaystyle E^{-}} ) edges; that is, the edges are signed. The minimum disagreement correlation clustering problem is the following optimization problem: minimize Π ∑ e ∈ E + ∩ δ ( Π ) w e + ∑ e ∈ E − ∖ δ ( Π ) w e . {\displaystyle {\begin{aligned}&{\underset {\Pi }{\operatorname {minimize} }}&&\sum _{e\in E^{+}\cap \delta (\Pi )}w_{e}+\sum _{e\in E^{-}\setminus \delta (\Pi )}w_{e}\;.\end{aligned}}} Here, the set E + ∩ δ ( Π ) {\displaystyle E^{+}\cap \delta (\Pi )} contains the attractive edges whose endpoints are in different components with respect to the clustering Π {\displaystyle \Pi } and the set E − ∖ δ ( Π ) {\displaystyle E^{-}\setminus \delta (\Pi )} contains the repulsive edges whose endpoints are in the same component with respect to the clustering Π {\displaystyle \Pi } . Together these two sets contain all edges that disagree with the clustering Π {\displaystyle \Pi } . Similarly to the minimum disagreement correlation clustering problem, the maximum agreement correlation clustering problem is defined as maximize Π ∑ e ∈ E + ∖ δ ( Π ) w e + ∑ e ∈ E − ∩ δ ( Π ) w e . {\displaystyle {\begin{aligned}&{\underset {\Pi }{\operatorname {maximize} }}&&\sum _{e\in E^{+}\setminus \delta (\Pi )}w_{e}+\sum _{e\in E^{-}\cap \delta (\Pi )}w_{e}\;.\end{aligned}}} Here, the set E + ∖ δ ( Π ) {\displaystyle E^{+}\setminus \delta (\Pi )} contains the attractive edges whose endpoints are in the same component with respect to the clustering Π {\displaystyle \Pi } and the set E − ∩ δ ( Π ) {\displaystyle E^{-}\cap \delta (\Pi )} contains the repulsive edges whose endpoints are in different components with respect to the clustering Π {\displaystyle \Pi } . Together these two sets contain all edges that agree with the clustering Π {\displaystyle \Pi } . Instead of formulating the correlation clustering problem in terms of non-negative edge weights and a partition of the edges into attractive and repulsive edges the problem is also formulated in terms of positive and negative edge costs without partitioning the set of edges explicitly. For given weights w : E → R ≥ 0 {\displaystyle w\colon E\to \mathbb {R} _{\geq 0}} and a given partition E = E + ∪ E − {\displaystyle E=E^{+}\cup E^{-}} of the edges into attractive and repulsive edges, the edge costs can be defined by c e = { w e if e ∈ E + − w e if e ∈ E − {\displaystyle {\begin{aligned}c_{e}={\begin{cases}\;\;w_{e}&{\text{if }}e\in E^{+}\\-w_{e}&{\text{if }}e\in E^{-}\end{cases}}\end{aligned}}} for all e ∈ E {\displaystyle e\in E} . An edge whose endpoints are in different clusters is said to be cut. The set δ ( Π ) {\displaystyle \delta (\Pi )} of all edges that are cut is often called a multicut of G {\displaystyle G} . The minimum cost multicut problem is the problem of finding a clustering Π {\displaystyle \Pi } of G {\displaystyle G} such that the sum of the costs of the edges whose endpoints are in different clusters is minimal: minimize Π ∑ e ∈ δ ( Π ) c e . {\displaystyle {\begin{aligned}&{\underset {\Pi }{\operatorname {minimize} }}&&\sum _{e\in \delta (\Pi )}c_{e}\;.\end{aligned}}} Similar to the minimum cost multicut problem, coalition structure generation in weighted graph games is the problem of finding a clustering such that the sum of the costs of the edges that are not cut is maximal: maximize Π ∑ e ∈ E ∖ δ ( Π ) c e . {\displaystyle {\begin{aligned}&{\underset {\Pi }{\operatorname {maximize} }}&&\sum _{e\in E\setminus \delta (\Pi )}c_{e}\;.\end{aligned}}} This formulation is also known as the clique partitioning problem. It can be shown that all four problems that are formulated above are equivalent. This means that a clustering that is optimal with respect to any of the four objectives is optimal for all of the four objectives. == Algorithms == If the graph admits a clustering with zero disagreements, then deleting all negative edges and computing the connected components of the remaining graph yields an optimal clustering. A necessary and sufficient condition for the existence of such a clustering was given by Davis: no cycle in the graph may contain exactly one negative edge. Bansal et al. discuss the NP-completeness proof and also present both a constant factor approximation algorithm and polynomial-time approximation scheme to find the clusters in this setting. Ailon et al. propose a randomized 3-approximation algorithm for the same problem. CC-Pivot(G=(V,E+,E−)) Pick random pivot i ∈ V Set C = { i } {\displaystyle C=\{i\}} , V'=Ø For all j ∈ V, j ≠ i; If (i,j) ∈ E+ then Add j to C Else (If (i,j) ∈ E−) Add j to V' Let G' be the subgraph induced by V' Return clustering C,CC-Pivot(G') The authors show that the above algorithm is a 3-approximation algorithm for correlation clustering. The best polynomial-time approximation algorithm known at the moment for this problem achieves a ~2.06 approximation by rounding a linear program, as shown by Chawla, Makarychev, Schramm, and Yaroslavtsev. Karpinski and Schudy proved existence of a polynomial time approximation scheme (PTAS) for that problem on complete graphs and fixed number of clusters. == Optimal number of clusters == In 2011, it was shown by Bagon and Galun that the optimization of the correlation clustering functional is closely related to well known discrete optimization methods. In their work they proposed a probabilistic analysis of the underlying implicit model that allows the correlation clustering functional to estimate the

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  • Bioz

    Bioz

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

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  • PropBank

    PropBank

    PropBank is a corpus that is annotated with verbal propositions and their arguments—a "proposition bank". Although "PropBank" refers to a specific corpus produced by Martha Palmer et al., the term propbank is also coming to be used as a common noun referring to any corpus that has been annotated with propositions and their arguments. The PropBank project has played a role in research in natural language processing, and has been used in semantic role labelling. == Comparison == PropBank differs from FrameNet, the resource to which it is most frequently compared, in several ways. PropBank is a verb-oriented resource, while FrameNet is centered on the more abstract notion of frames, which generalizes descriptions across similar verbs (e.g. "describe" and "characterize") as well as nouns and other words (e.g. "description"). PropBank does not annotate events or states of affairs described using nouns. PropBank commits to annotating all verbs in a corpus, whereas the FrameNet project chooses sets of example sentences from a large corpus and only in a few cases has annotated longer continuous stretches of text. PropBank-style annotations often remain close to the syntactic level, while FrameNet-style annotations are sometimes more semantically motivated. From the start, PropBank was developed with the idea of serving as training data for machine learning-based semantic role labeling systems in mind. It requires that all arguments to a verb be syntactic constituents and different senses of a word are only distinguished if the differences bear on the arguments. Due to such differences, semantic role labeling with respect to PropBank is often a somewhat easier task than producing FrameNet-style annotations.

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  • Genetic operator

    Genetic operator

    A genetic operator is an operator used in evolutionary algorithms (EA) to guide the algorithm towards a solution to a given problem. There are three main types of operators (mutation, crossover and selection), which must work in conjunction with one another in order for the algorithm to be successful. Genetic operators are used to create and maintain genetic diversity (mutation operator), combine existing solutions (also known as chromosomes) into new solutions (crossover) and select between solutions (selection). The classic representatives of evolutionary algorithms include genetic algorithms, evolution strategies, genetic programming and evolutionary programming. In his book discussing the use of genetic programming for the optimization of complex problems, computer scientist John Koza has also identified an 'inversion' or 'permutation' operator; however, the effectiveness of this operator has never been conclusively demonstrated and this operator is rarely discussed in the field of genetic programming. For combinatorial problems, however, these and other operators tailored to permutations are frequently used by other EAs. Mutation (or mutation-like) operators are said to be unary operators, as they only operate on one chromosome at a time. In contrast, crossover operators are said to be binary operators, as they operate on two chromosomes at a time, combining two existing chromosomes into one new chromosome. == Operators == Genetic variation is a necessity for the process of evolution. Genetic operators used in evolutionary algorithms are analogous to those in the natural world: survival of the fittest, or selection; reproduction (crossover, also called recombination); and mutation. === Selection === Selection operators give preference to better candidate solutions (chromosomes), allowing them to pass on their 'genes' to the next generation (iteration) of the algorithm. The best solutions are determined using some form of objective function (also known as a 'fitness function' in evolutionary algorithms), before being passed to the crossover operator. Different methods for choosing the best solutions exist, for example, fitness proportionate selection and tournament selection. A further or the same selection operator is used to determine the individuals for being selected to form the next parental generation. The selection operator may also ensure that the best solution(s) from the current generation always become(s) a member of the next generation without being altered; this is known as elitism or elitist selection. === Crossover === Crossover is the process of taking more than one parent solutions (chromosomes) and producing a child solution from them. By recombining portions of good solutions, the evolutionary algorithm is more likely to create a better solution. As with selection, there are a number of different methods for combining the parent solutions, including the edge recombination operator (ERO) and the 'cut and splice crossover' and 'uniform crossover' methods. The crossover method is often chosen to closely match the chromosome's representation of the solution; this may become particularly important when variables are grouped together as building blocks, which might be disrupted by a non-respectful crossover operator. Similarly, crossover methods may be particularly suited to certain problems; the ERO is considered a good option for solving the travelling salesman problem. === Mutation === The mutation operator encourages genetic diversity amongst solutions and attempts to prevent the evolutionary algorithm converging to a local minimum by stopping the solutions becoming too close to one another. In mutating the current pool of solutions, a given solution may change between slightly and entirely from the previous solution. By mutating the solutions, an evolutionary algorithm can reach an improved solution solely through the mutation operator. Again, different methods of mutation may be used; these range from a simple bit mutation (flipping random bits in a binary string chromosome with some low probability) to more complex mutation methods in which genes in the solution are changed, for example by adding a random value from the Gaussian distribution to the current gene value. As with the crossover operator, the mutation method is usually chosen to match the representation of the solution within the chromosome. == Combining operators == While each operator acts to improve the solutions produced by the evolutionary algorithm working individually, the operators must work in conjunction with each other for the algorithm to be successful in finding a good solution. Using the selection operator on its own will tend to fill the solution population with copies of the best solution from the population. If the selection and crossover operators are used without the mutation operator, the algorithm will tend to converge to a local minimum, that is, a good but sub-optimal solution to the problem. Using the mutation operator on its own leads to a random walk through the search space. Only by using all three operators together can the evolutionary algorithm become a noise-tolerant global search algorithm, yielding good solutions to the problem at hand.

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  • Multilayer perceptron

    Multilayer perceptron

    In deep learning, a multilayer perceptron (MLP) is a kind of modern feedforward neural network consisting of fully connected neurons with nonlinear activation functions, organized in layers, notable for being able to distinguish data that is not linearly separable. Modern neural networks are trained using backpropagation and are colloquially referred to as "vanilla" networks. MLPs grew out of an effort to improve on single-layer perceptrons, which could only be applied to linearly separable data. A perceptron traditionally used a Heaviside step function as its nonlinear activation function. However, the backpropagation algorithm requires that modern MLPs use continuous activation functions such as sigmoid or ReLU. Multilayer perceptrons form the basis of deep learning, and are applicable across a vast set of diverse domains. == Timeline == In 1943, Warren McCulloch and Walter Pitts proposed the binary artificial neuron as a logical model of biological neural networks. In 1958, Frank Rosenblatt proposed the multilayered perceptron model, consisting of an input layer, a hidden layer with randomized weights that did not learn, and an output layer with learnable connections. In 1962, Rosenblatt published many variants and experiments on perceptrons in his book Principles of Neurodynamics, including up to 2 trainable layers by "back-propagating errors". However, it was not the backpropagation algorithm, and he did not have a general method for training multiple layers. In 1965, Alexey Grigorevich Ivakhnenko and Valentin Lapa published Group Method of Data Handling. It was one of the first deep learning methods, used to train an eight-layer neural net in 1971. In 1967, Shun'ichi Amari reported the first multilayered neural network trained by stochastic gradient descent, was able to classify non-linearily separable pattern classes. Amari's student Saito conducted the computer experiments, using a five-layered feedforward network with two learning layers. Backpropagation was independently developed multiple times in early 1970s. The earliest published instance was Seppo Linnainmaa's master thesis (1970). Paul Werbos developed it independently in 1971, but had difficulty publishing it until 1982. In 1986, David E. Rumelhart et al. popularized backpropagation. In 2003, interest in backpropagation networks returned due to the successes of deep learning being applied to language modelling by Yoshua Bengio with co-authors. In 2021, a very simple NN architecture combining two deep MLPs with skip connections and layer normalizations was designed and called MLP-Mixer; its realizations featuring 19 to 431 millions of parameters were shown to be comparable to vision transformers of similar size on ImageNet and similar image classification tasks. == Mathematical foundations == === Activation function === If a multilayer perceptron has a linear activation function in all neurons, that is, a linear function that maps the weighted inputs to the output of each neuron, then linear algebra shows that any number of layers can be reduced to a two-layer input-output model. In MLPs some neurons use a nonlinear activation function that was developed to model the frequency of action potentials, or firing, of biological neurons. The two historically common activation functions are both sigmoids, and are described by y ( v i ) = tanh ⁡ ( v i ) and y ( v i ) = ( 1 + e − v i ) − 1 {\displaystyle y(v_{i})=\tanh(v_{i})~~{\textrm {and}}~~y(v_{i})=(1+e^{-v_{i}})^{-1}} . The first is a hyperbolic tangent that ranges from −1 to 1, while the other is the logistic function, which is similar in shape but ranges from 0 to 1. Here y i {\displaystyle y_{i}} is the output of the i {\displaystyle i} th node (neuron) and v i {\displaystyle v_{i}} is the weighted sum of the input connections. Alternative activation functions have been proposed, including the rectifier and softplus functions. More specialized activation functions include radial basis functions (used in radial basis networks, another class of supervised neural network models). In recent developments of deep learning the rectified linear unit (ReLU) is more frequently used as one of the possible ways to overcome the numerical problems related to the sigmoids. === Layers === The MLP consists of three or more layers (an input and an output layer with one or more hidden layers) of nonlinearly-activating nodes. Since MLPs are fully connected, each node in one layer connects with a certain weight w i j {\displaystyle w_{ij}} to every node in the following layer. === Learning === Learning occurs in the perceptron by changing connection weights after each piece of data is processed, based on the amount of error in the output compared to the expected result. This is an example of supervised learning, and is carried out through backpropagation, a generalization of the least mean squares algorithm in the linear perceptron. We can represent the degree of error in an output node j {\displaystyle j} in the n {\displaystyle n} th data point (training example) by e j ( n ) = d j ( n ) − y j ( n ) {\displaystyle e_{j}(n)=d_{j}(n)-y_{j}(n)} , where d j ( n ) {\displaystyle d_{j}(n)} is the desired target value for n {\displaystyle n} th data point at node j {\displaystyle j} , and y j ( n ) {\displaystyle y_{j}(n)} is the value produced by the perceptron at node j {\displaystyle j} when the n {\displaystyle n} th data point is given as an input. The node weights can then be adjusted based on corrections that minimize the error in the entire output for the n {\displaystyle n} th data point, given by E ( n ) = 1 2 ∑ output node j e j 2 ( n ) {\displaystyle {\mathcal {E}}(n)={\frac {1}{2}}\sum _{{\text{output node }}j}e_{j}^{2}(n)} . Using gradient descent, the change in each weight w i j {\displaystyle w_{ij}} is Δ w j i ( n ) = − η ∂ E ( n ) ∂ v j ( n ) y i ( n ) {\displaystyle \Delta w_{ji}(n)=-\eta {\frac {\partial {\mathcal {E}}(n)}{\partial v_{j}(n)}}y_{i}(n)} where y i ( n ) {\displaystyle y_{i}(n)} is the output of the previous neuron i {\displaystyle i} , and η {\displaystyle \eta } is the learning rate, which is selected to ensure that the weights quickly converge to a response, without oscillations. In the previous expression, ∂ E ( n ) ∂ v j ( n ) {\displaystyle {\frac {\partial {\mathcal {E}}(n)}{\partial v_{j}(n)}}} denotes the partial derivate of the error E ( n ) {\displaystyle {\mathcal {E}}(n)} according to the weighted sum v j ( n ) {\displaystyle v_{j}(n)} of the input connections of neuron i {\displaystyle i} . The derivative to be calculated depends on the induced local field v j {\displaystyle v_{j}} , which itself varies. It is easy to prove that for an output node this derivative can be simplified to − ∂ E ( n ) ∂ v j ( n ) = e j ( n ) ϕ ′ ( v j ( n ) ) {\displaystyle -{\frac {\partial {\mathcal {E}}(n)}{\partial v_{j}(n)}}=e_{j}(n)\phi ^{\prime }(v_{j}(n))} where ϕ ′ {\displaystyle \phi ^{\prime }} is the derivative of the activation function described above, which itself does not vary. The analysis is more difficult for the change in weights to a hidden node, but it can be shown that the relevant derivative is − ∂ E ( n ) ∂ v j ( n ) = ϕ ′ ( v j ( n ) ) ∑ k − ∂ E ( n ) ∂ v k ( n ) w k j ( n ) {\displaystyle -{\frac {\partial {\mathcal {E}}(n)}{\partial v_{j}(n)}}=\phi ^{\prime }(v_{j}(n))\sum _{k}-{\frac {\partial {\mathcal {E}}(n)}{\partial v_{k}(n)}}w_{kj}(n)} . This depends on the change in weights of the k {\displaystyle k} th nodes, which represent the output layer. So to change the hidden layer weights, the output layer weights change according to the derivative of the activation function, and so this algorithm represents a backpropagation of the activation function.

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