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  1. 2481
    “…Availability and implementation: Source code is available under the GNU General Public License at https://github.com/mpgerstl/networkRobustnessToolbox. …”
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    Exact quantification of cellular robustness in genome-scale metabolic networks
  2. 2482
    “…We also include a C++ source code that can calculate the 3D rotation vectors of the eye position from two-dimensional coordinates of the pupil and the iris freckle in the image to this article.…”
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    High-Speed Video-Oculography for Measuring Three-Dimensional Rotation Vectors of Eye Movements in Mice
  3. 2483
    “…Availability and implementation: The HapMuC source code is available from http://github.com/usuyama/hapmuc. …”
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    HapMuC: somatic mutation calling using heterozygous germ line variants near candidate mutations
  4. 2484
    “…Releases and documentation are available at http://pypi.python.org/pypi/dreamtools. The source code is available at http://github.com/dreamtools/dreamtools.…”
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    DREAMTools: a Python package for scoring collaborative challenges
  5. 2485
    “…Availability and implementation: RVTESTS is available on Linux, MacOS and Windows. Source code and executable files can be obtained at https://github.com/zhanxw/rvtests Contact: zhanxw@gmail.com; goncalo@umich.edu; dajiang.liu@outlook.com Supplementary information: Supplementary data are available at Bioinformatics online.…”
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    RVTESTS: an efficient and comprehensive tool for rare variant association analysis using sequence data
  6. 2486
    por Li, Yupeng, Jackson, Scott A.
    Publicado 2016
    “…The platform is available at http://crowd.bioops.info/, and the source code can be openly accessed at https://github.com/bioops/crowdnodnet under MIT License.…”
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    Crowdsourcing the nodulation gene network discovery environment
  7. 2487
    “…Our network biology platform includes freely available source code (http://www.NetDecoder.org) for researchers to explore genome-wide context-dependent information flow profiles and key genes, given a set of genes of particular interest and transcriptome data. …”
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    NetDecoder: a network biology platform that decodes context-specific biological networks and gene activities
  8. 2488
    “…Materials and Methods Using cutting-edge technologies deployed on FDA’s new public cloud computing infrastructure, openFDA provides open data for easier, faster (over 300 requests per second per process), and better access to FDA datasets; open source code and documentation shared on GitHub for open community contributions of examples, apps and ideas; and infrastructure that can be adopted for other public health big data challenges. …”
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    OpenFDA: an innovative platform providing access to a wealth of FDA’s publicly available data
  9. 2489
    por Ye, Chengxi, Ma, Zhanshan (Sam)
    Publicado 2016
    “…Compared with the existing approaches, Sparc calculates the consensus with higher accuracy, and uses approximately 80% less memory and time. Availability. The source code is available for download at https://github.com/yechengxi/Sparc.…”
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    Sparc: a sparsity-based consensus algorithm for long erroneous sequencing reads
  10. 2490
    por Zitnik, Marinka, Zupan, Blaz
    Publicado 2016
    “…Availability and implementation: Source code is at http://github.com/marinkaz/medusa Contact: marinka@cs.stanford.edu, blaz.zupan@fri.uni-lj.si…”
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    Jumping across biomedical contexts using compressive data fusion
  11. 2491
    “…Availability and Implementation: Source code of bcalm 2 is freely available at: https://github.com/GATB/bcalm Contact: rayan.chikhi@univ-lille1.fr…”
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    Compacting de Bruijn graphs from sequencing data quickly and in low memory
  12. 2492
    “…AVAILABILITY: QuIN’s web server is available at http://quin.jax.org QuIN is developed in Java and JavaScript, utilizing an Apache Tomcat web server and MySQL database and the source code is available under the GPLV3 license available on GitHub: https://github.com/UcarLab/QuIN/.…”
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    QuIN: A Web Server for Querying and Visualizing Chromatin Interaction Networks
  13. 2493
    “…Users can create and submit jobs on our free server (at the URL listed above), or use our open-source code to launch their own PhyloBot server.…”
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    PhyloBot: A Web Portal for Automated Phylogenetics, Ancestral Sequence Reconstruction, and Exploration of Mutational Trajectories
  14. 2494
    “…This classifier, denoted as Mycofier, provides similar classification accuracy compared to BLASTN, but the database used for the classification contains curated data and the tool, independent of alignment, is more efficient and contributes to the field, given the lack of an accurate classification tool for large data from fungal ITS1 sequences. The software and source code for Mycofier are freely available at https://github.com/ldelgado-serrano/mycofier.git. …”
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    Mycofier: a new machine learning-based classifier for fungal ITS sequences
  15. 2495
    por Ekinci, Yunus Levent
    Publicado 2016
    “…Accordingly, the proposed code is verified to be useful in interpreting isolated single thin dike-like magnetized bodies and may be an alternative processing technique. The open source code can be easily modified and adapted to suit the benefits of other researchers. …”
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    MATLAB-based algorithm to estimate depths of isolated thin dike-like sources using higher-order horizontal derivatives of magnetic anomalies
  16. 2496
    “…The software is implemented in C, Python and shell scripting and is capable of running on Linux/Unix platforms. The source code and installation instructions are available at http://alan.cs.gsu.edu/NGS/?…”
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    Inferring metabolic pathway activity levels from RNA-Seq data
  17. 2497
    “…Iterating the presented procedure eventually results in an identifiable model, which is capable of generating precise and testable predictions. Source code for all toy examples is provided within the freely available, open-source modelling environment Data2Dynamics based on MATLAB available at http://www.data2dynamics.org/, as well as the R packages dMod/cOde available at https://github.com/dkaschek/. …”
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    Driving the Model to Its Limit: Profile Likelihood Based Model Reduction
  18. 2498
    “…Here we describe a simple experimental set-up and a novel open-source code, named M-Track, for simultaneously tracking the movement of individual forepaws during spontaneous grooming in multiple freely-behaving mice. …”
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    M-Track: A New Software for Automated Detection of Grooming Trajectories in Mice
  19. 2499
    por Cuscó, Pol, Filion, Guillaume J.
    Publicado 2016
    “…Availability and Implementation: Zerone is available as a command line tool and as an R package. The C source code and R scripts can be downloaded from https://github.com/nanakiksc/zerone. …”
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    Zerone: a ChIP-seq discretizer for multiple replicates with built-in quality control
  20. 2500
    “…We integrated rasbhari into Spaced Words; the source code of rasbhari is freely available at http://rasbhari.gobics.de/…”
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    rasbhari: Optimizing Spaced Seeds for Database Searching, Read Mapping and Alignment-Free Sequence Comparison
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