Search Results for "hierarchical clustering in matlab"
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Showing 49 open source projects for "hierarchical clustering in matlab"
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MatlabMachine
Machine learning algorithms
Matlab-Machine is a comprehensive collection of machine learning algorithms implemented in MATLAB. It includes both basic and advanced techniques for classification, regression, clustering, and dimensionality reduction. Designed for educational and research purposes, the repository provides clear implementations that help users understand core ML concepts. -
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HDBSCAN
A high performance implementation of HDBSCAN clustering
HDBSCAN - Hierarchical Density-Based Spatial Clustering of Applications with Noise. Performs DBSCAN over varying epsilon values and integrates the result to find a clustering that gives the best stability over epsilon. This allows HDBSCAN to find clusters of varying densities (unlike DBSCAN), and be more robust to parameter selection. In practice this means that HDBSCAN returns a good clustering straight away with little or no parameter tuning -- and the primary parameter, minimum cluster size, is intuitive and easy to select. ... -
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Machine Learning Octave
MatLab/Octave examples of popular machine learning algorithms
...Code written so as to expose and comment on mathematical steps. The repository includes clustering, regression, classification, neural networks, anomaly detection, and other standard ML topics. Does not rely heavily on specialized toolboxes or library shortcuts. -
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DeepSqueak
DeepSqueak Using Machine Vision to Accelerate Bioacoustics Research
Using Machine Vision to Accelerate Bioacoustics Research. -
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hctsa
Highly comparative time-series analysis
hctsa is a Matlab software package for running highly comparative time-series analysis. It extracts thousands of time-series features from a collection of univariate time series and includes a range of tools for visualizing and analyzing the resulting time-series feature matrix. -
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Orange Data Mining
Orange: Interactive data analysis
...Perform simple data analysis with clever data visualization. Explore statistical distributions, box plots and scatter plots, or dive deeper with decision trees, hierarchical clustering, heatmaps, MDS and linear projections. Even your multidimensional data can become sensible in 2D, especially with clever attribute ranking and selections. Interactive data exploration for rapid qualitative analysis with clean visualizations. Graphic user interface allows you to focus on exploratory data analysis instead of coding, while clever defaults make fast prototyping of a data analysis workflow extremely easy. ... -
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DBreeze Database
C# .NET NOSQL ( key value store embedded ) ACID database
DBreeze Database is a professional, open-source, multi-paradigm (embedded Key-Value store, objects, NoSql, text search, multi-parameter search, embedding vector database, vector similarity search/clustering, etc.), multi-threaded, transactional and ACID-compliant data management system for .NET5> / .NET Framework 3.5> / Xamarin MONO Android iOS / .NET Core 1.0> / .NET Standard 1.6> / Universal Windows Platform / .NET Portable / UNITY / CoreRT. -
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vis-network
Display dynamic, automatically organised, customizable network views
Network is a visualization to display networks and networks consisting of nodes and edges. The visualization is easy to use and supports custom shapes, styles, colors, sizes, images, and more. The network visualization works smooth on any modern browser for up to a few thousand nodes and edges. To handle a larger amount of nodes, Network has clustering support. Network uses HTML canvas for rendering. As of 4.0, the network consists of individual modules which handle specific parts of the... -
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Armadillo
fast C++ library for linear algebra & scientific computing
* Fast C++ library for linear algebra (matrix maths) and scientific computing * Easy to use functions and syntax, deliberately similar to Matlab / Octave * Uses template meta-programming techniques to increase efficiency * Provides user-friendly wrappers for OpenBLAS, Intel MKL, LAPACK, ATLAS, ARPACK, SuperLU and FFTW libraries * Useful for machine learning, pattern recognition, signal processing, bioinformatics, statistics, finance, etc. * Downloads:... -
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MooseFS
Fault tolerant, POSIX-compliant, Net Distributed Storage / File System
MooseFS (MFS) is a fault tolerant, highly performing, scaling-out, network distributed file system. It spreads data over several physical servers which are visible to the user as one resource. For standard file operations MooseFS mounted with FUSE acts as other Unix-alike file systems: * A hierarchical structure (directory tree) * Stores POSIX file attributes (permissions, last access and modification times) Supports special files (block and character devices, pipes and sockets) *... -
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RAFTS³G
Rapid Alignment Free Tool for Sequences Similarity Search to Groups
| RAFTS3G - Rapid Alignment Free Tool for Sequences Similarity Search to Groups| % Clustering algoritm to create homology clusters based on RAFTS3 (VIALLE, R. A.) % More informations about RAFTS3 in: https://sourceforge.net/projects/rafts3/ % Professional and Technical Education Sector from the Federal University of Paraná - Bioinformatic Lab. % Federal of Paraná University - UFPR % Dr. Alcides Vieira Arco-verde street, 1225 % CEP: 81520-260 Jardim das Américas % ... -
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TransMCL
a noval Transcriptome optimization tool
To improve the quality of transcriptome assembly, we introduce TransMCL, a novel transcriptome optimization tool, to reconstruct full-length coding sequences while eliminating redundancy from assembled transcriptomes. TransMCL employs homologs from closely related species to guide the assembly, clustering raw transcripts from transcriptome data and genes from annotated genomes into hierarchical ortholog groups (HOGs). -
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Hierarchical DP
Source code of DC-HDP
Hierarchical clustering that takes advantage of both density-peak and density-connectivity. Information Systems. The preprint version can be obtained at: https://arxiv.org/abs/1810.03393 -
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Texthero
Text preprocessing, representation and visualization from zero to hero
Texthero is a python package to work with text data efficiently. It empowers NLP developers with a tool to quickly understand any text-based dataset and it provides a solid pipeline to clean and represent text data, from zero to hero. -
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This Matlab code is used for demonstration of the effect of CDF-TS as a preprocessing method to transform data. Written by Ye Zhu, Deakin University, April 2021, version 1.0. This software is under GNU General Public License version 3.0 (GPLv3) This code is a demo of method described by the following publication: Zhu, Y., Ting, K.M., Carman, M. and Angelova, M., 2021, April. CDF Transform-and-Shift: An effective way to deal with datasets of inhomogeneous cluster densities. Pattern...
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Isolation Similarity
aNNE similarity based on Isolation Kernel
Demo of using aNNE similarity for DBSCAN. Written by Xiaoyu Qin, Monash University, March 2019, version 1.0 This software is under GNU General Public License version 3.0 (GPLv3) This code is a demo of method described by the following publication: Qin, X., Ting, K.M., Zhu, Y. and Lee, V.C., 2019, July. Nearest-neighbour-induced isolation similarity and its impact on density-based clustering. In Proceedings of the AAAI Conference on Artificial Intelligence (Vol. 33, pp.... -
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NOVA
Analysis and visualization of complexome profiling data.
NOVA is a program designed to analysis complexome profiling data (Heide et al., 2012). A graphical user interface (GUI) provides various visualization tools, such as heat maps and 2D plots. Several hierarchical clustering algorithms (e.g., single linkage, average linkage, Wards linkage), different distance measures (e.g., Euclidean distance, Manhattan distance, Pearson distance), and various normalization techniques are implemented. Many additional functions like zooming, searching for proteins, image export, and automatic file format recognition support intuitive handling for biologists. ... -
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GSMLBook
Recipes for basic machine learning algorithms using sklearn in jupyter
...Topics include linear, multilinear, polynomial, stepwise, lasso, ridge, and logistic regression; ROC curves and measures of binary classification; nonlinear regression (including an introduction to gradient descent); classification and regression trees; random forests; neural networks; probabilistic methods (KNN, naive Bayes', QDA, LDA); dimensionality reduction with PCA; support vector machines; and clustering with K-Means, hierarchical, and DBScan. Appendices provide a review of probability and linear algebra. While some mathematical foundation is provided, it is not essential for understanding the implementations. The target audience is advanced community college and university students. -
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Coursera Machine Learning
Coursera Machine Learning By Prof. Andrew Ng
CourseraMachineLearning is a personal collection of resources, notes, and programming exercises from Andrew Ng’s popular Machine Learning course on Coursera. It consolidates lecture references, programming tutorials, test cases, and supporting materials into one repository for easier review and practice. The project highlights fundamental machine learning concepts such as hypothesis functions, cost functions, gradient descent, bias-variance tradeoffs, and regression models. It also organizes... -
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Clustering by Shared Subspaces
Grouping Points by Shared Subspaces for Effective Subspace Clustering
These functions implement a subspace clustering algorithm, proposed by Ye Zhu, Kai Ming Ting, and Mark J. Carman: "Grouping Points by Shared Subspaces for Effective Subspace Clustering", Published in Pattern Recognition Journal at https://doi.org/10.1016/j.patcog.2018.05.027 -
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Distance Scaling
A Distance Scaling Method to Improve Density-Based Clustering
These functions implement a distance scaling method, proposed by Ye Zhu, Kai Ming Ting, and Maia Angelova, "A Distance Scaling Method to Improve Density-Based Clustering", in PAKDD2018 proceedings: https://doi.org/10.1007/978-3-319-93040-4_31. -
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All future developments will be implemented in the new MATLAB toolbox SciXMiner, please visit https://sourceforge.net/projects/scixminer/ to download the newest version. The former Matlab toolbox Gait-CAD was designed for the visualization and analysis of time series and features with a special focus to data mining problems including classification, regression, and clustering.
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Density-ratio based clustering
Discovering clusters with varying densities
This site provides the source code of two approaches for density-ratio based clustering, used for discovering clusters with varying densities. One approach is to modify a density-based clustering algorithm to do density-ratio based clustering by using its density estimator to compute density-ratio. The other approach involves rescaling the given dataset only. An existing density-based clustering algorithm, which is applied to the rescaled dataset, can find all clusters with varying... -
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Zika-RNAseq-Pipeline
An open RNA-Seq data analysis pipeline tutorial
...The pipeline uses state-of-the-art tools and can run on various platforms with minimal configuration overhead. The pipeline enables the extraction of knowledge from typical RNA-seq studies by generating interactive principal component analysis (PCA) and hierarchical clustering (HC) plots, performing enrichment analyses against over 90 gene set libraries, and obtaining lists of small molecules that are predicted to either mimic or reverse the observed changes in mRNA expression. -
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