Search Results for "network graph analysis" - Page 17
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Showing 902 open source projects for "network graph analysis"
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GESPA
Accurately predicts disease association of single nucleotide mutations
GESPA (GEnomic Single nucleotide Polymorphism Analyzer) is a bioinformatics tool for classifying Nonsynonymous Single Nucleotide Polymorphisms (nsSNPs). GESPA predicts if a nsSNP is pathogenic using reports from literature and various algorithms to assess conservation in orthologous and paralogous protein alignments. Using reports from literature, GESPA is also able to predict the phenotype of a nsSNP with high accuracy. The software can be used clinically to determine if observed nsSNPs are... -
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DynamicRoots
Software for the Reconstruction and Analysis of Growing Plant Roots
This is a software platform for reconstructing and analyzing the growth of a plant root system from a time-series of 3D shapes. It aligns the shapes with each other, constructs a geometric graph representation together with the function that records the time of growth, and organizes the branches into a hierarchy that reflects the order of creation. The software includes the automatic computation of structural and dynamic traits for each root in the system enabling the quantification of... -
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SoNIA (Social Network Image Animator)
Social Network Image Animator creates animations of network data
SoNIA (Social Network Image Animator) is a Java-based package for visualizing dynamic or longitudinal network data and rendering it out as animations. The home page with examples is located at http://sonia.stanford.edu Documentation is at https://sourceforge.net/p/sonia/wiki/Main_Page/ -
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BigBrotherBot (B3) is a cross-platform, cross-game game administration bot. Features in-game administration of game servers, multiple user access levels, and database storage. Currently include parsers for: Call of Duty, Urban Terror and more!
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MongoDB Atlas runs apps anywhereMongoDB Atlas gives you the freedom to build and run modern applications anywhere—across AWS, Azure, and Google Cloud. With global availability in over 115 regions, Atlas lets you deploy close to your users, meet compliance needs, and scale with confidence across any geography.
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Chordalysis
Log-linear analysis (data modelling) for high-dimensional data
===== Project moved to https://github.com/fpetitjean/Chordalysis ===== Log-linear analysis is the statistical method used to capture multi-way relationships between variables. However, due to its exponential nature, previous approaches did not allow scale-up to more than a dozen variables. We present here Chordalysis, a log-linear analysis method for big data. Chordalysis exploits recent discoveries in graph theory by representing complex models as compositions of triangular structures, also known as chordal graphs. ... -
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Power-grid synchronization models
Computing parameters for network dynamics models
This repository contains a MATLAB toolbox 'pg_sync_models' for computing the parameters of the three models for power-grid synchronization dynamics, as described in T. Nishikawa and A. E. Motter, Comparative analysis of existing models for power-grid synchronization, New J. Phys. 17 (2015) 015012. http://dx.doi.org/10.1088/1367-2630/17/1/015012 The toolbox also contains data files for four of the example systems discussed in the article. -
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Constrictor
Flux balance analysis constraint modification
Constrictor is a simple FBA tool for analyzing the impact of fine-tuned gene repression on metabolic network performance. Constrictor is built in MATLAB, for use with the COBRA toolbox. -
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VANTED - Visualization and Analysis of NeTworks containing Experimental Data At SourceForge the VANTED development history is preserved, only limited amount of development will proceed here. Please head on to the most recent developments, which can be observed at www.vanted.org.
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AIStockBot
Stock Analysis Program
AIStockBot aims to become the greatest Technical and Fundamental Stock Analysis program using different approaches including Artificial Intelligence. It strives to recommend stocks better than your average Financial Adviser. -
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Biogranat (Molecular Biology Graph Visualisation and Analysis Tool) is a new tool for the analysis and visualisation of large datasets.
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The Community <a href="http://opticks.ballforge.net">Opticks</a> Archive Network hosts community contributions for the <a href="http://opticks.ballforge.net">Opticks</a> imagery analysis workbench.
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Graph-RAT is a database abstraction layer designed to make it easy to use a large library of graph-analysis routines on a database as well as add new kinds of algorithms to data mining.
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HRDAG
Framework for Hierarchical Graph Decomposition
This is a framework used to decompose hierarchical graphs, i.e.,graphs which were created from or contain a hierarchy of modules. Each module is reused several times in the hierarchy. This may be useful to reverse-engineer human constructs like electronic equipment, manufactured machines, or bureaucratic hierarchies; but also to decompose natural constructs like gene-relation or protein-relation nets. -
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Shiny is a lightning fast, fully documented & by-far-easiest-to-use C/C++/Lua profiler with no extensive surgery. Results are smoothed & shown in run-time as a call-tree or sorted-by-time. Output also renderable as graphs in Ogre3D or your custom engine
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PyInteraph
analysis of interaction networks in structural ensembles of proteins
...These graphs can be thoroughly analyzed using included network analysis tools, which are able to point out the most important features of the network for the discovery of paths of structural communication in proteins. The tool works best together with the xPyder PyMOL plugin ( http://xpyder.sourceforge.net ), which allows for further analysis and easily understandable representation of the calculated networks and graphs. -
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NGSbinningpytools
Python tools for binning NGS scaffolds to various genomes.
Next generation sequencing has opened new avenues for sequencing prokaryotes which were difficult or either impossible to culture. Now, it is possible to sequence all organisms present in a metagenomic community. However, a critical problem is to determine the host organism for each genomic fragment present in the dataset. This project provides the computational tools for assigning the organismal identity for each genomic scaffold in the given dataset. For more detailed documentation... -
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Luscinia is a program for archiving and analyzing field sound recordings (especially of animals). It incorporates an interface to a database, spectrogram measurement algorithms, sound comparison algorithms, and statistical analysis.
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xPyder PyMOL Plugin
Analyze and visualize coupled residues and their networks in proteins
xPyder is a PyMOL plugin to analyze and visualize on the 3D structure dynamical cross-correlation matrices (DCCM), linear mutual information (LMI), communication propensities (CP), intra- and inter-molecular interactions (e.g. PSN), and more, to produce highly customizable publication-quality images. xPyder identifies networks (using concepts from graph theory, such as hubs and shortest path searching), compares matrices and focuses the analysis on relevant information by filtering the data using a modular, user-expandable plugin system that takes advantage of structural and dynamical information, contributing to bridge the gap between dynamical and mechanical properties at the molecular level. -
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COV2HTML
A visualization and analysis tool of Bacterial NGS data for Biologists
COV2HTML provides an easy and 'in home' web interface for biologists that allows coverage visualization of the NGS alignment needed for the analysis. It combines two essential processes: (i) MAP2COV, a tool that converts the huge NGS mapping or coverage files into light specific coverage files which contains genetic elements informations. (ii) COV2HTML, a visualization interface allowing a real-time analysis of data with selected criteria. Thus this interface offers a visualization of NGS... -
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EMFTrace
Repository for dependencies between software design artefacts
EMFTrace extends the EMFStore repository by elicitating dependencies between related models of different modeling and programming languages. The explicit recording and modeling of different types of dependencies as traceability links shall support evolutionary changes by impact analysis, early evaluation of quality flaws, and better comprehension. It is an open source project to support the practical application of research results regarding development methods for evolution of software... -
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Persica-A new Persian corpus for NLP
This project presents a new corpus for NEWS text analysis in Persian
Lack of multi-application text corpus despite of the surging text data is a serious bottleneck in the text mining and natural language processing especially in Persian language. This project presents a new corpus for NEWS articles analysis in Persian called Persica. NEWS analysis includes NEWS classification, topic discovery and classification, category classification and many more procedures. Dealing with NEWS has special requirements and first of all a valid and reliable corpus to perform... -
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Deem
Analyze time-course data with significance tests, clustering, modeling
Use statistical methods to analyze time-course data (gene expression microarray and RNA-seq data in particular, but not limited to). Apply significance tests to filter out only significant genes or time series. Cluster time series into similar groups. Generate network models, including linear or non-linear models. Variable selection and optimization routines included. Written in Scala and R. The application is a cross-platform desktop app with a simple GUI and is fully functional... -
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TCP Segment Retransmission Viewer
View, graph, record TCP segment retransmission rates
View, graph, and record TCP segment retransmissions to quickly see network congestion / problems TCP segment retransmissions are a sign of network congestion and reduced throughput. A segment is retransmitted from a client if there is no corresponding acknowledgment from the receiving host. Further analysis can be done in Wireshark at the packet level if a problem is suspected. -
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Agent.GUI
The Project moved to github https://github.com/EnFlexIT/AgentWorkbench
The project has moved to github https://github.com/EnFlexIT/AgentWorkbench Agent.GUI is a simulation framework and toolkit based on the JADE framework. It provides functionalities for time aspects, agent-environment interaction, visualization and load balancing, Furthermore, the included application focuses the usability for end users.
