Search Results for "c-sharp" - Page 2
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Showing 53 open source projects for "c-sharp"
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psignifit is a toolbox to fit psychometric functions and test hypotheses on psychometric data. This is version 3 which will now predominantly support python.
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mapgraph
Massively Parallel Graph processing on GPUs -- now part of Blazegraph
...The early work was released under the Apache 2 open source license and is available on here at Sourceforge. This work was (partially) funded by the DARPA XDATA program under AFRL Contract #FA8750-13-C-0002 and DARPA Contract #D14PC00029. -
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BiomeNet
BAYESIAN INFERENCE OF METABOLIC DIVERGENCE AMONG MICROBIAL COMMUNITIES
Metagenomics yields enormous numbers of microbial sequences that can be assigned a metabolic function. Using such data to infer community-level metabolic divergence is hindered by the lack of a suitable statistical framework. Here, we describe a novel hierarchical Bayesian model, called BiomeNet (Bayesian inference of metabolic networks), for inferring differential prevalence of metabolic networks among microbial communities. To infer the structure of community-level metabolic... -
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QPNet
Synchronous Petri Nets' emulator
QPNet (Quick Petri Net) is a fast Petri Nets' emulator, created by students of Moscow State Technical University of Radio Engineering, Electronics and Automation. It brings benefits for the educational process, while being under further development and extension. QPNet это быстрый эмулятор сетей Петри, созданный студентами МИРЭА. Он применяется в учебном процессе, а так же продолжает разрабатываться и эволюционировать. -
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datadensityplot
Creates a data density plot of a 2 dimensional data distribution.
Shows the data density of a 2 dimensional distribution. The problem of showing data density visually is not mathematically well defined, and there are several methods. The program uses sum of reciprocal squared distance to calculate density at each point, with a smear factor to prevent points going to infinity. The smear factor also controls the amount of clustering. There are several options for colour output. Input is via a csv (comma-separated values) file. Now there's a nice GUI... -
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phcfM
R package for modelling anthropogenic deforestation
...It was named after the REDD+ pilot-project 'programme holistique de conservation des forêts à Madagascar'. phcfM includes two main functions: (i) demography(), to model the population growth with time in a hierarchical Bayesian framework using population census data and Gaussian linear mixed models and (ii) deforestation(), to model the deforestation process in a hierarchical Bayesian framework using land-cover change data and Binomial logistic regression models with variable time-intervals between land-cover observations. The two functions use embedded Gibbs samplers written in C++ with the Scythe statistical library to reduce computational time. -
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GENIE (GEne-geNe IntEraction)
GPU based Parallel Gene-Gene Interaction Analysis
Gene-gene interaction in genetic association studies is computationally intensive when a large number of SNPs are involved. Most of the latest Central Processing Units (CPUs) have multiple cores, whereas Graphics Processing Units (GPUs) also have hundreds of cores and have been recently used to implement faster scientific software. However, currently there are no genetic analysis software packages that allow users to fully utilize the computing power of these multi-core devices for genetic... -
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Statistics modules in Perl Data Language, with a quick-start guide for non-PDL people. They make the PDL shell work like R, but with PDL threading (fast automatic iteration) of procedures including t-test, linear regression, and k-means clustering.
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FreDec
Parallelized FREquency DEComposer algorithm
This is a parallelized algorithm performing a decomposition of the time-series data into a number of sinusoidal components, disentangling them from the white Gaussian noise. The algorithm analyses all suspicious frequencies, including the ones that look like an alias at a glance, but may become preferable later. After selection of the initial frequency candidates, the algorithm passes through all their possible combinations and estimates their multi-frequency statistical significance. In the... -
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A collection of small utilities with a connection to cryptography and cryptanalysis. Written for efficiency and a small memory footprint.
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DyMMM
Dynamic Multispecies Metabolic Modeling framework
...The DyMMM framework was formerly known as the DMMM framework. Please use the following citation for bibliographical purposes: Zhuang, K., Izallalen, M., Mouser, P., Richter, H., Risso, C., Mahadevan, R., & Lovley, D. R. (2011). Genome-scale dynamic modeling of the competition between Rhodoferax and Geobacter in anoxic subsurface environments. The ISME journal. Zhuang, K., Ma, E., Lovley, D. R., & Mahadevan, R. (2012). The design of long-term effective uranium bioremediation strategy using a community metabolic model. ... -
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CvHMM
Discrete Hidden Markov Models based on OpenCV
This project (CvHMM) is an implementation of discrete Hidden Markov Models (HMM) based on OpenCV. It is simple to understand and simple to use. The Zip file contains one header for the implementation and one main.cpp file for a demonstration of how it works. Hope it becomes useful for your projects. -
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ShiVaSmiles
A slick interface to see various scale analysis algorithms in action.
The Shape Visualizer is intented to be an exploratory/educational tool making it quick and easy to see how various mathematical methods perform in analysing and selecting the various patterns present on an image. The main website is built as a wiki gathering info and examples on the various implemented algorithms. The combination of the application and its wiki intend to constitute a nice little pedagogic toolkit for multiscale analysis. Feel free to contribute code or wiki content ! -
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The Automated Parameter Estimation and Model Selection Toolkit is a fast, parallelized MCMC engine written in C for Bayesian inference (parameter estimation and model selection).
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mlpy
Machine Learning Python
mlpy is a Python module for Machine Learning built on top of NumPy/SciPy and of GSL. mlpy provides high-level functions and classes allowing, with few lines of code, the design of rich workflows for classification, regression, clustering and feature selection. mlpy is free software; you can redistribute it and/or modify it under the terms of the GNU General Public License version 3. mlpy is available both for Python >=2.6 and Python 3.X. -
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knowceans
Utility classes from maps to search engine to random samplers
.... --- Highlights: --- org.knowceans.util: IndexQuickSort, TableList: apply order of one array/list to others +++ Vectors, ArrayUtils: array convenience +++ RandomSamplers, CokusRandom, ArmSampler, Densities: random sampling and distributions +++ Arguments: command line parser +++ StopWatch, Which, ExternalProcess: runtime stuff +++ ParallelFor: OpenMP workalike +++ PatternString, NamedGroupRegex: regex convenience --- org.knowceans.corpus: CorpusSearcher: full-text search engine +++ LabelNumCorpus: svmlight corpus storage and filtering +++ NIPS corpus with text, authors, labels and citations --- org.knowceans.map: InvertibleHashMultiMap, BijectiveHashMap: implement n:m and 1:1 relations. --- Other libs: knowceans-arms = port of the Adaptive Rejection Metropolis Sampler (ARMS) for arbitrary distributions +++ lda-j = port of lda-c, implementing Latent Dirichlet Allocation (LDA) -
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Plots Binomial and Poisson distributions based on different values of p and n to visually express, how much those distributions are "close"
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This software computes likelihoods for infinitely-many-sites sequence data under multiple merger coalescents. The likelihood can be computed exactly or approximated via importance sampling.
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A collection of compact, powerful programs and functions, written in C, for the analysis and transformation of data. No object or structure dependencies, no fancy interfaces - just good tools.
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A population-based method for DNA copy number analysis: recurrent copy number aberration indentification in multiple samples (with no need of single-sample calling). Developed for a quick analysis of high resolution and large population data.
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FastPval is multiple stage p-value computing software that computes empirical p-values from a large set of permutated/resampled background data.
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Stand-alone software tool for the interactive CE analysis of microarray data. The software is a user-friendly and allows on-the-fly study of CE
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Software to cluster protein sequences into functionally similar groups. Journal reference: http://bioinformatics.oxfordjournals.org/cgi/content/short/24/16/1765
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Calculates how much time and money you need to win in the lottery. It uses multiple gthreads and gtk2 to sort 1 to 50 numbers until the user wins. Asking for the cost and time beetwin games, it calculates if you or your grandchildren will be rich.
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A collection of different methods for implementing in C++ polycrystalline growth for metals during annealing or recrystallization.
