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  • Get More. Spend Less. Get More. Spend Less. Icon
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  • Take Advantage of O365 + Online Backup Bundles Take Advantage of O365 + Online Backup Bundles Icon
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    The Perfect Small Business Offer That Packages Productivity, Disaster Recovery & Security Under One Price Tag. Join SherWeb to Start Reselling.

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  • Cygwin Ports Icon

    Cygwin Ports

    Repository of desktops and programs for the Cygwin platform

    A large repository of open-source programs built for Cygwin, including X11 desktops, language interpreters, multimedia frameworks, cross-compiler toolchains, and much more. Also hosted here is the cygport tool for building Cygwin packages. cygport releases and the Ports Git repositories are hosted here; Ports packages are available from the website.

  • TXM Icon

    TXM

    Unicode-XML-TEI text/corpus analysis platform

    TXM is a free and open-source cross-platform Unicode & XML based text/corpus analysis environment and graphical client, supporting Windows, Linux and Mac OS X. It can also be used online as a J2EE standard compliant web portal (GWT based) with access control built in. DOWNLOAD LATEST VERSION OF TXM : http://textometrie.ens-lyon.fr/spip.php?rubrique61&lang=en TXM offers a comprehensive range of analysis tools (concordances, collocate search, frequency lists, etc.) based on the powerfull CQP full text search engine (http://cwb.sourceforge.net) and a range of statistical functions (factorial analysis, classification, cooccurrency analysis, etc.) based on R packages (http://www.r-project.org). Read the scientific background at the Textométrie project web site http://textometrie.ens-lyon.fr/?lang=en. Read a full description at the TEI Tools wiki http://wiki.tei-c.org/index.php/TXM.

  • Ship Lock Scheduling

    Scheduling lockages at ship locks with several parallel lock chambers

    This Java software includes algorithms of combinatorical optimization for the NP-hard offline ship lock scheduling problem. Solutions and performed computations can be displayed graphically. Besides, there is a framework for generating test instances and running these in parallel, as well as R/JGR code for statistical evaluation. Some tools for estimating the quality of calculated solutions will be further improved. Initially the software was developed within a project of TU Berlin regarding the Kiel Canal. See project wiki for conditions that should be met by applications.

  • R packages (maintained by YJLEE) Icon

    R packages (maintained by YJLEE)

    R packages for PK/PD modeling, BE/BA, drug stability, ivivc, etc.

    These R packages are developed for data analysis of PK/PD modeling, bioequivalence/bioavailability (BE/BA), drug stability, in-vitro and in-vivo correlation (ivivc), as well as therapeutic drug monitoring (TDM). They include bear, ivivc, PKfit, stab and tdm.

  • IAP.G2P Icon

    IAP.G2P

    IAP - the Integrated Analysis Pipeline

    The Integrated Analysis Platform (IAP) has been designed and developed to support the analysis of large-scale image data sets of different camera systems. It aims in bridging different data domains and in integrating different approaches to data analysis and post-processing.

    Downloads: 1 This Week Last Update: See Project
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    Easily combine data from multiple sources to build dashboards and reports with our scalable solution built for mid-size to enterprise companies.

    Pyramid combines analytic tools often found in separate applications. It features a graphically based ETL to model data and incorporate machine learning algorithms, intuitive data discovery tools that produce simple and advanced visualizations, a presentation builder for creating analytic applications and presentations, and an enterprise-grade report builder—all in a single, integrated platform that can be accessed from any browser or device.
  • EDDA

    Experiment Design for Differential Abundance Analysis

    EDDA is a tool for systematic assessment of the impact of experimental design and the statistical test used on the ability to detect differential abundance. EDDA can aid in the design of a range of common experiments such as RNA-seq, ChIP-seq, Nanostring assays, RIP-seq and Metagenomic sequencing, and enables researchers to comprehensively investigate the impact of experimental decisions on the ability to detect differential abundance. More details of EDDA can be found at Luo, Huaien et al. “The Importance of Study Design for Detecting Differentially Abundant Features in High-Throughput Experiments.” Genome Biology 2014;15(12):527 (http://www.ncbi.nlm.nih.gov/pubmed/25517037/). An accompanying web server (http://edda.gis.a-star.edu.sg/) is available for easy access to some functionality of EDDA. Additionally a Bioconductor package (http://www.bioconductor.org/packages/release/bioc/html/EDDA.html) is available for easy installation of EDDA R package.

    Downloads: 0 This Week Last Update: See Project
  • GEPETTO - Gene Prioritization in Java Icon

    GEPETTO - Gene Prioritization in Java

    GEPETTO (GEne Prioritization ExTended TOol)

    GEPETTO (GEne PrioriTization ExTended TOol) is an original open-source framework, distributed under the LGPL license, for gene selection and prioritization on a desktop computer that ensures confidentiality of personal data. It takes advantage of the data integration capabilities in the SM2PH-Central Framework(KD4v,MSV3d,BIRD,..), combined with in-house developed gene prioritization methods. It currently incorporates six prioritization modules, based on gene sequence, protein-protein interactions, gene expression, disease-causing probabilities, genomic context). GEPETTO is written in Java/Python and supported by an advanced modular architecture, which means that it can easily be modified and extended by the user, in order to include alternative scoring methods and new data sources. We intend to extend the system from gene-level to variant-level prioritization, by exploiting the variant data in the MSV3D database. Contact: bmhoan@gmail.com or walter.vincent.fr@gmail.com

    Downloads: 1 This Week Last Update: See Project
  • mcpd

    Tools to analyse and use passport data for biological collections.

    Downloads: 0 This Week Last Update: See Project
  • MyNook Icon

    MyNook

    A machine learning system for supervised document classification

    An open source system for supervised document classification based on statistical machine learning techniques. On the contrary of the state of art classification techniques, MyNook just requires the title of the document, not the content itself.

    Downloads: 0 This Week Last Update: See Project
  • AFLP

    An R package to normalise, classify and analyses raw AFLP data.

    Downloads: 0 This Week Last Update: See Project
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    Use DigitalOcean to Build, Deploy & Scale Web Apps Icon

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  • vipR

    vipR is a program to screen for sequence variants (SNPs, deletions) in sequence data generated by high-throughput-sequencing platforms. Information on this and other projects can be found on: http://www.altmann.eu

    Downloads: 0 This Week Last Update: See Project
  • HOEA

    Hoea is a python module for hierarchical ontology enrichment analysis, which facilitated GO (Gene Ontology)/KO (KEGG Orthology) enrichment analysis at any desktop.

    Downloads: 0 This Week Last Update: See Project
  • Open Metaheuristic

    Open Metaheuristic (oMetah) is a library aimed at the conception and the rigourous testing of metaheuristics (i.e. genetic algorithms, simulated annealing, ...). The code design is separated in components : algorithms, problems and a test report generator

    Downloads: 1 This Week Last Update: See Project
  • WikiXRay

    The goal of this project is to develop a Python tool to make an in-depth quantitative analysis about Wikipedia, generating graphics and statistical results for each language version of Wikipedia.

    Downloads: 0 This Week Last Update: See Project
  • Community Detection Modularity Suite Icon

    Community Detection Modularity Suite

    Suite of community detection algorithms based on Modularity

    - MixtureModel_v1r1: overlapping community algorithm [3], which includes novel partition density and fuzzy modularity metrics. - OpenMP versions of algorithms in [1] are available to download. - Main suite containing three community detection algorithms based on the Modularity measure containing: Geodesic and Random Walk edge Betweenness [1] and Spectral Modularity [2]. Collaborator: Theologos Kotsos. [1] M. Newman & M. Girvan, Physical Review, E 69 (026113), 2004. [2] M. Newman, Physical Review E, 74(3):036104, 2006. [3] B. Ball et al, An efficient and principled method for detecting communities in networks, 2011. The suite is based upon the fast community algorithm implemented by Aaron Clauset <aaron@cs.unm.edu>, Chris Moore, Mark Newman, and the R IGraph library Copyright (C) 2007 Gabor Csardi <csardi@rmki.kfki.hu>. It also makes of the classes available from Numerical Recipies 3rd Edition W. Press, S. Teukolsky, W. Vetterling, B. Flanne

    Downloads: 0 This Week Last Update: See Project
  • runjags

    The 'runjags' R package and standalone JAGS extension module

    This package provides high-level interface utilities for MCMC models via Just Another Gibbs Sampler (JAGS), facilitating the use of parallel (or distributed) processors for multiple chains, automated control of convergence and sample length diagnostics, and evaluation of the performance of a model using drop-k validation or against simulated data. Template model specifications can be generated using a standard lme4-style formula interface to assist users less familiar with the BUGS syntax. A JAGS extension module provides additional distributions including the Pareto family of distributions, the DuMouchel prior and the half-Cauchy prior.

    Downloads: 2 This Week Last Update: See Project
  • DuffyRNAseq

    DuffyRNAseq is an R package that implements an analysis pipeline for processing RNA-seq data from Illumina NextGen sequencers, to measure gene transcription and differential expression.

    Downloads: 0 This Week Last Update: See Project
  • Panacea

    PAN And Core-gEnome Analysis

    A tool to calculate the Pan-Genome of a set of annotated genomes

    Downloads: 0 This Week Last Update: See Project
  • CABBaGe Icon

    CABBaGe

    Classification Algorithm Based on a Bayesian method for Genomics

    Downloads: 0 This Week Last Update: See Project
  • Xpose

    Xpose - an S/R based population PK/PD model building aid for NONMEM.

    Downloads: 13 This Week Last Update: See Project
  • gedit Connected Terminal Plugin

    A plug-in for the gedit software bundled in the Gnome desktop. It creates a terminal titled "gedit Connected Terminal" at start-up. The plug-in associates copying to that terminal in gedit with the F5 key. This works well with the R interpreter.

    Downloads: 0 This Week Last Update: See Project
  • K-OPLS

    An implementation of the Kernel-based Orthogonal Projections to Latent Structures (K-OPLS) method for MATLAB and R. The supplied functionality includes e.g. cross-validation, kernel parameter optimization, model diagnostics and plot tools.

    Downloads: 14 This Week Last Update: See Project
  • Space syntax analysis for Grass

    In this very first part of the project OpenSpaceSyntax is a collection of functions in shall scripts oriented to the calculation of classic measures of a space syntax analisys procedure for urban fabrics and based on GIS-GRASS (grass.itc.it).

    Downloads: 0 This Week Last Update: See Project
  • ALEXA-Seq

    ALEXA-Seq is a method for using massively parallel paired-end transcriptome sequencing for 'alternative expression analysis'.

    Downloads: 0 This Week Last Update: See Project
  • rNMR

    Software for visualizing and interpreting NMR data, with an emphasis on metabolomics. Go to the rNMR homepage at http://rnmr.nmrfam.wisc.edu for more details.

    Downloads: 0 This Week Last Update: See Project
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