iTools is a distributed infrastructure for managing, discovery, comparison and integration of computational biology resources. iTools employs Biositemap technology to retrieve and service meta-data about diverse bioinformatics data services, tools, and web-services. iTools is developed by the National Centers for Biomedical Computing as part of the NIH Road Map Initiative.
Gollum browser
Gollum browser is a discontinued web browser for accessing Wikipedia. Since 2017, Gollum is no longer accessible online. Gollum is designed to browse Wikipedia in an easier way than directly using the web browser. Links external to Wikipedia are opened in the user's regular browser. Gollum is opened from a regular browser and makes a window that puts the Wikipedia search bar on the toolbar. Gollum was created by Harald Hanek in 2005 using PHP and Ajax. According to one blogger, Gollum provides a way to bypass censorship of Wikipedia in China. == Languages == Though the website is available only in English and German, Gollum's GUI is available in more than 32 languages and can browse nearly 50 Wikipedia editions. === Gollum's GUI === === Browsable Wikipedia editions ===
Stochastic block model
The stochastic block model is a generative model for random graphs. This model tends to produce graphs containing communities, subsets of nodes characterized by being connected with one another with particular edge densities. For example, edges may be more common within communities than between communities. Its mathematical formulation was first introduced in 1983 in the field of social network analysis by Paul W. Holland et al. The stochastic block model is important in statistics, machine learning, and network science, where it serves as a useful benchmark for the task of recovering community structure in graph data. == Definition == The stochastic block model takes the following parameters: The number n {\displaystyle n} of vertices; a partition of the vertex set { 1 , … , n } {\displaystyle \{1,\ldots ,n\}} into disjoint subsets C 1 , … , C r {\displaystyle C_{1},\ldots ,C_{r}} , called communities; a symmetric r × r {\displaystyle r\times r} matrix P {\displaystyle P} of edge probabilities. The edge set is then sampled at random as follows: any two vertices u ∈ C i {\displaystyle u\in C_{i}} and v ∈ C j {\displaystyle v\in C_{j}} are connected by an edge with probability P i j {\displaystyle P_{ij}} . An example problem is: given a graph with n {\displaystyle n} vertices, where the edges are sampled as described, recover the groups C 1 , … , C r {\displaystyle C_{1},\ldots ,C_{r}} . == Special cases == If the probability matrix is a constant, in the sense that P i j = p {\displaystyle P_{ij}=p} for all i , j {\displaystyle i,j} , then the result is the Erdős–Rényi model G ( n , p ) {\displaystyle G(n,p)} . This case is degenerate—the partition into communities becomes irrelevant—but it illustrates a close relationship to the Erdős–Rényi model. The planted partition model is the special case that the values of the probability matrix P {\displaystyle P} are a constant p {\displaystyle p} on the diagonal and another constant q {\displaystyle q} off the diagonal. Thus two vertices within the same community share an edge with probability p {\displaystyle p} , while two vertices in different communities share an edge with probability q {\displaystyle q} . Sometimes it is this restricted model that is called the stochastic block model. The case where p > q {\displaystyle p>q} is called an assortative model, while the case p < q {\displaystyle p
Self-organizing map
A self-organizing map (SOM) or self-organizing feature map (SOFM) is an unsupervised machine learning technique used to produce a low-dimensional (typically two-dimensional) representation of a higher-dimensional data set while preserving the topological structure of the data. For example, a data set with p {\displaystyle p} variables measured in n {\displaystyle n} observations could be represented as clusters of observations with similar values for the variables. These clusters then could be visualized as a two-dimensional "map" such that observations in proximal clusters have more similar values than observations in distal clusters. This can make high-dimensional data easier to visualize and analyze. A SOM is a type of artificial neural network but is trained using competitive learning rather than the error-correction learning (e.g., backpropagation with gradient descent) used by other artificial neural networks. The SOM was introduced by the Finnish professor Teuvo Kohonen in the 1980s and therefore is sometimes called a Kohonen map or Kohonen network. The Kohonen map or network is a computationally convenient abstraction building on biological models of neural systems from the 1970s and morphogenesis models dating back to Alan Turing in the 1950s. SOMs create internal representations reminiscent of the cortical homunculus, a distorted representation of the human body, based on a neurological "map" of the areas and proportions of the human brain dedicated to processing sensory functions, for different parts of the body. == Overview == Self-organizing maps, like most artificial neural networks, operate in two modes: training and mapping. First, training uses an input data set (the "input space") to generate a lower-dimensional representation of the input data (the "map space"). Second, mapping classifies additional input data using the generated map. The goal of training is to represent an input space with p dimensions as a map space with n dimensions, where p > n. Specifically, an input space with p variables is said to have p dimensions. A map space consists of components called "nodes" or "neurons", which are arranged as a hexagonal or rectangular grid with two dimensions. The number of nodes and their arrangement are specified beforehand based on the larger goals of the analysis and exploration of the data. Each node in the map space is associated with a "weight" vector, which is the position of the node in the input space. While nodes in the map space stay fixed, training consists in moving weight vectors toward the input data (reducing a distance metric such as Euclidean distance) without spoiling the topology induced from the map space. After training, the map can be used to classify additional observations for the input space by finding the node with the closest weight vector (smallest distance metric) to the input space vector. == Learning algorithm == The goal of learning in the self-organizing map is to cause different parts of the network to respond similarly to certain input patterns. This is partly motivated by how visual, auditory or other sensory information is handled in separate parts of the cerebral cortex in the human brain. The weights of the neurons are initialized either to small random values or sampled evenly from the subspace spanned by the two largest principal component eigenvectors. With the latter alternative, learning is much faster because the initial weights already give a good approximation of SOM weights. The network must be fed a large number of example vectors that represent, as close as possible, the kinds of vectors expected during mapping. The examples are usually administered several times as iterations. The training utilizes competitive learning. When a training example is fed to the network, its Euclidean distance to all weight vectors is computed. The neuron whose weight vector is most similar to the input is called the best matching unit (BMU). The weights of the BMU and neurons close to it in the SOM grid are adjusted towards the input vector. The magnitude of the change decreases with time and with the grid-distance from the BMU. The update formula for a neuron v with weight vector Wv(s) is W v ( s + 1 ) = W v ( s ) + θ ( u , v , s ) ⋅ α ( s ) ⋅ ( D ( t ) − W v ( s ) ) {\displaystyle W_{v}(s+1)=W_{v}(s)+\theta (u,v,s)\cdot \alpha (s)\cdot (D(t)-W_{v}(s))} , where s is the step index, t is an index into the training sample, u is the index of the BMU for the input vector D(t), α(s) is a monotonically decreasing learning coefficient; θ(u, v, s) is the neighborhood function which gives the distance between the neuron u and the neuron v in step s. Depending on the implementations, t can scan the training data set systematically (t is 0, 1, 2...T-1, then repeat, T being the training sample's size), be randomly drawn from the data set (bootstrap sampling), or implement some other sampling method (such as jackknifing). The neighborhood function θ(u, v, s) (also called function of lateral interaction) depends on the grid-distance between the BMU (neuron u) and neuron v. In the simplest form, it is 1 for all neurons close enough to BMU and 0 for others, but the Gaussian and Mexican-hat functions are common choices, too. Regardless of the functional form, the neighborhood function shrinks with time. At the beginning when the neighborhood is broad, the self-organizing takes place on the global scale. When the neighborhood has shrunk to just a couple of neurons, the weights are converging to local estimates. In some implementations, the learning coefficient α and the neighborhood function θ decrease steadily with increasing s, in others (in particular those where t scans the training data set) they decrease in step-wise fashion, once every T steps. This process is repeated for each input vector for a (usually large) number of cycles λ. The network winds up associating output nodes with groups or patterns in the input data set. If these patterns can be named, the names can be attached to the associated nodes in the trained net. During mapping, there will be one single winning neuron: the neuron whose weight vector lies closest to the input vector. This can be simply determined by calculating the Euclidean distance between input vector and weight vector. While representing input data as vectors has been emphasized in this article, any kind of object which can be represented digitally, which has an appropriate distance measure associated with it, and in which the necessary operations for training are possible can be used to construct a self-organizing map. This includes matrices, continuous functions or even other self-organizing maps. === Algorithm === Randomize the node weight vectors in a map For s = 0 , 1 , 2 , . . . , λ {\displaystyle s=0,1,2,...,\lambda } Randomly pick an input vector D ( t ) {\displaystyle {D}(t)} Find the node in the map closest to the input vector. This node is the best matching unit (BMU). Denote it by u {\displaystyle u} For each node v {\displaystyle v} , update its vector by pulling it closer to the input vector: W v ( s + 1 ) = W v ( s ) + θ ( u , v , s ) ⋅ α ( s ) ⋅ ( D ( t ) − W v ( s ) ) {\displaystyle W_{v}(s+1)=W_{v}(s)+\theta (u,v,s)\cdot \alpha (s)\cdot (D(t)-W_{v}(s))} The variable names mean the following, with vectors in bold, s {\displaystyle s} is the current iteration λ {\displaystyle \lambda } is the iteration limit t {\displaystyle t} is the index of the target input data vector in the input data set D {\displaystyle \mathbf {D} } D ( t ) {\displaystyle {D}(t)} is a target input data vector v {\displaystyle v} is the index of the node in the map W v {\displaystyle \mathbf {W} _{v}} is the current weight vector of node v {\displaystyle v} u {\displaystyle u} is the index of the best matching unit (BMU) in the map θ ( u , v , s ) {\displaystyle \theta (u,v,s)} is the neighbourhood function, α ( s ) {\displaystyle \alpha (s)} is the learning rate schedule. The key design choices are the shape of the SOM, the neighbourhood function, and the learning rate schedule. The idea of the neighborhood function is to make it such that the BMU is updated the most, its immediate neighbors are updated a little less, and so on. The idea of the learning rate schedule is to make it so that the map updates are large at the start, and gradually stop updating. For example, if we want to learn a SOM using a square grid, we can index it using ( i , j ) {\displaystyle (i,j)} where both i , j ∈ 1 : N {\displaystyle i,j\in 1:N} . The neighborhood function can make it so that the BMU updates in full, the nearest neighbors update in half, and their neighbors update in half again, etc. θ ( ( i , j ) , ( i ′ , j ′ ) , s ) = 1 2 | i − i ′ | + | j − j ′ | = { 1 if i = i ′ , j = j ′ 1 / 2 if | i − i ′ | + | j − j ′ | = 1 1 / 4 if | i − i ′ | + | j − j ′ | = 2 ⋯ ⋯ {\displaystyle \theta ((i,j),(i',j'),s)={\frac {1}{2^{|i-i'|+|j-j'|}}}={\begin{cases}1&{\text{if }}i=i',j=j'\\1/2&{\text{if
Ensemble learning
In statistics and machine learning, ensemble methods use multiple learning algorithms to obtain better predictive performance than could be obtained from any of the constituent learning algorithms alone. Unlike a statistical ensemble in statistical mechanics, which is usually infinite, a machine learning ensemble consists of only a concrete finite set of alternative models, but typically allows for much more flexible structure to exist among those alternatives. == Overview == Supervised learning algorithms search through a hypothesis space to find a suitable hypothesis that will make good predictions with a particular problem. Even if this space contains hypotheses that are very well-suited for a particular problem, it may be very difficult to find a good one. Ensembles combine multiple hypotheses to form one which should be theoretically better. Ensemble learning trains two or more machine learning algorithms on a specific classification or regression task. The algorithms within the ensemble model are generally referred as "base models", "base learners", or "weak learners" in literature. These base models can be constructed using a single modelling algorithm, or several different algorithms. The idea is to train a diverse set of weak models on the same modelling task, such that the outputs of each weak learner have poor predictive ability (i.e., high bias), and among all weak learners, the outcome and error values exhibit high variance. Fundamentally, an ensemble learning model trains at least two high-bias (weak) and high-variance (diverse) models to be combined into a better-performing model. The set of weak models — which would not produce satisfactory predictive results individually — are combined or averaged to produce a single, high performing, accurate, and low-variance model to fit the task as required. Ensemble learning typically refers to bagging (bootstrap aggregating), boosting or stacking/blending techniques to induce high variance among the base models. Bagging creates diversity by generating random samples from the training observations and fitting the same model to each different sample — also known as homogeneous parallel ensembles. Boosting follows an iterative process by sequentially training each base model on the up-weighted errors of the previous base model, producing an additive model to reduce the final model errors — also known as sequential ensemble learning. Stacking or blending consists of different base models, each trained independently (i.e. diverse/high variance) to be combined into the ensemble model — producing a heterogeneous parallel ensemble. Common applications of ensemble learning include random forests (an extension of bagging), Boosted Tree models, and Gradient Boosted Tree Models. Models in applications of stacking are generally more task-specific — such as combining clustering techniques with other parametric and/or non-parametric techniques. Evaluating the prediction of an ensemble typically requires more computation than evaluating the prediction of a single model. In one sense, ensemble learning may be thought of as a way to compensate for poor learning algorithms by performing a lot of extra computation. On the other hand, the alternative is to do a lot more learning with one non-ensemble model. An ensemble may be more efficient at improving overall accuracy for the same increase in compute, storage, or communication resources by using that increase on two or more methods, than would have been improved by increasing resource use for a single method. Fast algorithms such as decision trees are commonly used in ensemble methods (e.g., random forests), although slower algorithms can benefit from ensemble techniques as well. By analogy, ensemble techniques have been used also in unsupervised learning scenarios, for example in consensus clustering or in anomaly detection. == Ensemble theory == Empirically, ensembles tend to yield better results when there is a significant diversity among the models. Many ensemble methods, therefore, seek to promote diversity among the models they combine. Although perhaps non-intuitive, more random algorithms (like random decision trees) can be used to produce a stronger ensemble than very deliberate algorithms (like entropy-reducing decision trees). Using a variety of strong learning algorithms, however, has been shown to be more effective than using techniques that attempt to dumb-down the models in order to promote diversity. It is possible to increase diversity in the training stage of the model using correlation for regression tasks or using information measures such as cross entropy for classification tasks. Theoretically, one can justify the diversity concept because the lower bound of the error rate of an ensemble system can be decomposed into accuracy, diversity, and the other term. === The geometric framework === Ensemble learning, including both regression and classification tasks, can be explained using a geometric framework. Within this framework, the output of each individual classifier or regressor for the entire dataset can be viewed as a point in a multi-dimensional space. Additionally, the target result is also represented as a point in this space, referred to as the "ideal point." The Euclidean distance is used as the metric to measure both the performance of a single classifier or regressor (the distance between its point and the ideal point) and the dissimilarity between two classifiers or regressors (the distance between their respective points). This perspective transforms ensemble learning into a deterministic problem. For example, within this geometric framework, it can be proved that the averaging of the outputs (scores) of all base classifiers or regressors can lead to equal or better results than the average of all the individual models. It can also be proved that if the optimal weighting scheme is used, then a weighted averaging approach can outperform any of the individual classifiers or regressors that make up the ensemble or as good as the best performer at least. == Ensemble size == While the number of component classifiers of an ensemble has a great impact on the accuracy of prediction, there is a limited number of studies addressing this problem. A priori determining of ensemble size and the volume and velocity of big data streams make this even more crucial for online ensemble classifiers. Mostly statistical tests were used for determining the proper number of components. More recently, a theoretical framework suggested that there is an ideal number of component classifiers for an ensemble such that having more or less than this number of classifiers would deteriorate the accuracy. It is called "the law of diminishing returns in ensemble construction." Their theoretical framework shows that using the same number of independent component classifiers as class labels gives the highest accuracy. == Common types of ensembles == === Bayes optimal classifier === The Bayes optimal classifier is a classification technique. It is an ensemble of all the hypotheses in the hypothesis space. On average, no other ensemble can outperform it. The Naive Bayes classifier is a version of this that assumes that the data is conditionally independent on the class and makes the computation more feasible. Each hypothesis is given a vote proportional to the likelihood that the training dataset would be sampled from a system if that hypothesis were true. To facilitate training data of finite size, the vote of each hypothesis is also multiplied by the prior probability of that hypothesis. The Bayes optimal classifier can be expressed with the following equation: y = a r g m a x c j ∈ C ∑ h i ∈ H P ( c j | h i ) P ( T | h i ) P ( h i ) {\displaystyle y={\underset {c_{j}\in C}{\mathrm {argmax} }}\sum _{h_{i}\in H}{P(c_{j}|h_{i})P(T|h_{i})P(h_{i})}} where y {\displaystyle y} is the predicted class, C {\displaystyle C} is the set of all possible classes, H {\displaystyle H} is the hypothesis space, P {\displaystyle P} refers to a probability, and T {\displaystyle T} is the training data. As an ensemble, the Bayes optimal classifier represents a hypothesis that is not necessarily in H {\displaystyle H} . The hypothesis represented by the Bayes optimal classifier, however, is the optimal hypothesis in ensemble space (the space of all possible ensembles consisting only of hypotheses in H {\displaystyle H} ). This formula can be restated using Bayes' theorem, which says that the posterior is proportional to the likelihood times the prior: P ( h i | T ) ∝ P ( T | h i ) P ( h i ) {\displaystyle P(h_{i}|T)\propto P(T|h_{i})P(h_{i})} hence, y = a r g m a x c j ∈ C ∑ h i ∈ H P ( c j | h i ) P ( h i | T ) {\displaystyle y={\underset {c_{j}\in C}{\mathrm {argmax} }}\sum _{h_{i}\in H}{P(c_{j}|h_{i})P(h_{i}|T)}} === Bootstrap aggregating (bagging) === Bootstrap aggregation (bagging) involves training an ensemble on bootstrapped data sets. A bootstrapped set is cr
Meesho
Meesho Limited (short for Meri shop, transl. My shop) is an Indian e-commerce company, headquartered in Bengaluru. Founded by Vidit Aatrey and Sanjeev Barnwal in December 2015, Meesho is an online marketplace in categories such as fashion, home and kitchen, beauty and personal care, electronics accessories, and daily use products. == History == Meesho Private Limited, formerly Fashnear Technologies Private Limited, was established by IIT Delhi graduates Vidit Aatrey and Sanjeev Barnwal in December, 2015 In 2016, the founders came up with the idea of re-establishing the platform as Meesho, one that would enable country-wide shipping for resellers with the use of social media sites as tools for marketing. In February 2019, the platform reported having around 209,000 users and about 1.2 million monthly orders, and in March 2020, it reported approximately 563,000 users and 3.1 million monthly orders. In 2021, the Meesho mobile application was ranked among the most downloaded shopping apps globally. In 2022, Meesho had about 120 million monthly users and about 910 million orders were made through the platform, with a gross merchandise value (GMV) of about $5 billion. According to report as of August 2023 Meesho delisted 42 lakh counterfeit listings and 10 lakh restricted products under its initiative Project Suraksha. During the same period, the platform blocked access for over 12,000 user accounts flagged for policy violations. The Court granted injunctive relief by directing domain registrars to suspend the infringing websites. Additionally, the Court ordered law enforcement authorities to initiate criminal investigations, freeze associated financial accounts against the identified offenders. In 2023, Meesho became the fastest shopping app to cross over 500 million downloads. In 2024, Meesho introduced Valmo, a logistics marketplace, to provide shipment services to sellers by aggregating multiple logistics providers. Meesho employs over 3,000 small businesses and 10-12 large firms for warehousing and sorting operations within its logistics framework. According to media reports, Valmo operating in approximately 15,000 pincodes in India with around 6,000 partners. It is reported to handle over 50% of Meesho's daily orders. In November 2024, Meesho introduced a generative AI-powered voice bot for customer support, managing approximately 60,000 calls daily in English and Hindi. According to media reports, the system resolves the majority of queries without human assistance, with only a small fraction of calls requiring manual intervention. According to media reports, in 2024, Meesho prevented over 22 million suspicious or potentially fraudulent transactions on its platform. The company initiated legal proceedings, resulting in the filing of twelve cases, including nine specifically targeting over forty individuals in the cities of Kolkata and Ranchi. The company filed a suit in the Delhi High Court for a permanent injunction against parties operating deceptive websites misappropriating its brand identity. Meesha went public through an initial public offering in December 2025, raising $603 million. It is listed on both the BSE and NSE. == Recognition == In 2023, Meesho was named one of the most influential companies of the year by Time (magazine).
XGBoost
XGBoost (eXtreme Gradient Boosting) is an open-source software library which provides a regularizing gradient boosting framework for C++, Java, Python, R, Julia, Perl, and Scala. It works on Linux, Microsoft Windows, and macOS. From the project description, it aims to provide a "Scalable, Portable and Distributed Gradient Boosting (GBM, GBRT, GBDT) Library". It runs on a single machine, as well as the distributed processing frameworks Apache Hadoop, Apache Spark, Apache Flink, and Dask. XGBoost gained much popularity and attention in the mid-2010s as the algorithm of choice for many winning teams of machine learning competitions. == History == XGBoost initially started as a research project by Tianqi Chen as part of the Distributed (Deep) Machine Learning Community (DMLC) group at the University of Washington. Initially, it began as a terminal application which could be configured using a libsvm configuration file. It became well known in the ML competition circles after its use in the winning solution of the Higgs Machine Learning Challenge. Soon after, the Python and R packages were built, and XGBoost now has package implementations for Java, Scala, Julia, Perl, and other languages. This brought the library to more developers and contributed to its popularity among the Kaggle community, where it has been used for a large number of competitions. It was soon integrated with a number of other packages making it easier to use in their respective communities. It has now been integrated with scikit-learn for Python users and with the caret package for R users. It can also be integrated into Data Flow frameworks like Apache Spark, Apache Hadoop, and Apache Flink using the abstracted Rabit and XGBoost4J. XGBoost is also available on OpenCL for FPGAs. An efficient, scalable implementation of XGBoost has been published by Tianqi Chen and Carlos Guestrin. While the XGBoost model often achieves higher accuracy than a single decision tree, it sacrifices the intrinsic interpretability of decision trees. For example, following the path that a decision tree takes to make its decision is trivial and self-explained, but following the paths of hundreds or thousands of trees is much harder. == Features == Salient features of XGBoost which make it different from other gradient boosting algorithms include: Clever penalization of trees A proportional shrinking of leaf nodes Newton Boosting Extra randomization parameter Implementation on single, distributed systems and out-of-core computation Automatic feature selection Theoretically justified weighted quantile sketching for efficient computation Parallel tree structure boosting with sparsity Efficient cacheable block structure for decision tree training == The algorithm == XGBoost works as Newton–Raphson in function space unlike gradient boosting that works as gradient descent in function space, a second order Taylor approximation is used in the loss function to make the connection to Newton–Raphson method. A generic unregularized XGBoost algorithm is: == Parameters == XGBoost has parameters which can be specified to affect how it functions and performs. Some parameters include: Learning rate (also known as the "step size" or “"shrinkage"), it is a number between 0 and 1 (default is 0.3), which determines the rate the algorithm learns from each iteration. n_estimators, sets the number of trees to be built in the ensemble, where more trees generally increases the complexity of the model, but can lead to overfitting with too many trees. Gamma (also known as Lagrange multiplier or the minimum loss reduction parameter), controls the minimum amount of loss reduction required to make a further split on a leaf node of the tree. The default in XGBoost is 0 . max_depth, represents how deeply each tree in the boosting process can grow during training, where the default is 6. == Awards == John Chambers Award (2016) High Energy Physics meets Machine Learning award (HEP meets ML) (2016)