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  1. 4081
    por Crusoe, Michael R., Alameldin, Hussien F., Awad, Sherine, Boucher, Elmar, Caldwell, Adam, Cartwright, Reed, Charbonneau, Amanda, Constantinides, Bede, Edvenson, Greg, Fay, Scott, Fenton, Jacob, Fenzl, Thomas, Fish, Jordan, Garcia-Gutierrez, Leonor, Garland, Phillip, Gluck, Jonathan, González, Iván, Guermond, Sarah, Guo, Jiarong, Gupta, Aditi, Herr, Joshua R., Howe, Adina, Hyer, Alex, Härpfer, Andreas, Irber, Luiz, Kidd, Rhys, Lin, David, Lippi, Justin, Mansour, Tamer, McA'Nulty, Pamela, McDonald, Eric, Mizzi, Jessica, Murray, Kevin D., Nahum, Joshua R., Nanlohy, Kaben, Nederbragt, Alexander Johan, Ortiz-Zuazaga, Humberto, Ory, Jeramia, Pell, Jason, Pepe-Ranney, Charles, Russ, Zachary N., Schwarz, Erich, Scott, Camille, Seaman, Josiah, Sievert, Scott, Simpson, Jared, Skennerton, Connor T., Spencer, James, Srinivasan, Ramakrishnan, Standage, Daniel, Stapleton, James A., Steinman, Susan R., Stein, Joe, Taylor, Benjamin, Trimble, Will, Wiencko, Heather L., Wright, Michael, Wyss, Brian, Zhang, Qingpeng, zyme, en, Brown, C. Titus
    Publicado 2015
    “…The khmer package is a freely available software library for working efficiently with fixed length DNA words, or k-mers. khmer provides implementations of a probabilistic k-mer counting data structure, a compressible De Bruijn graph representation, De Bruijn graph partitioning, and digital normalization. khmer is implemented in C++ and Python, and is freely available under the BSD license at  https://github.com/dib-lab/khmer/.…”
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    The khmer software package: enabling efficient nucleotide sequence analysis
  2. 4082
    “…To facilitate this effort, we developed a computational tool named REMOD that allows the structural remodeling of any type of virtual neuron. REMOD is written in Python and can be accessed through a dedicated web interface that guides the user through various options to manipulate selected neuronal morphologies. …”
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    REMOD: A Tool for Analyzing and Remodeling the Dendritic Architecture of Neural Cells
  3. 4083
    “…Availability and implementation: Python code and examples are available online (http://cbio.ensmp.fr/∼aschoenauer/motiw.html) Contact: thomas.walter@mines-paristech.fr Supplementary information: Supplementary data are available at Bioinformatics online.…”
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    A generic methodological framework for studying single cell motility in high-throughput time-lapse data
  4. 4084
    “…Here we describe BluePyOpt, a Python package targeted at the broad neuroscience community to simplify this task. …”
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    Online Artículo Texto
    BluePyOpt: Leveraging Open Source Software and Cloud Infrastructure to Optimise Model Parameters in Neuroscience
  5. 4085
    “…We present the methodology and procedure to obtain a metabolic model using PyFBA, an extensible Python-based open-source software package aimed to provide a platform where functional annotations are used to build metabolic models (http://linsalrob.github.io/PyFBA). …”
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    Online Artículo Texto
    From DNA to FBA: How to Build Your Own Genome-Scale Metabolic Model
  6. 4086
    “…The procedure, implemented in NEURON, is currently available in ModelDB. A Python version is installed, and will be soon available for public use, as a standalone task in the Collaboratory Portal of the Human Brain Project. …”
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    A General Procedure to Study Subcellular Models of Transsynaptic Signaling at Inhibitory Synapses
  7. 4087
    “…A command line tool written in Python is available at https://github.com/davecao/tappm_cli. …”
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    Development of a prediction system for tail-anchored proteins
  8. 4088
    “…Three reptilian taxa: Crocodylus cf. siamensis, Python sp., and Varanus sp., are also identified. …”
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    The Middle Pleistocene vertebrate fauna from Khok Sung (Nakhon Ratchasima, Thailand): biochronological and paleobiogeographical implications
  9. 4089
    “…An ergonomic software package, PyKNOSSOS, was created in Python for data browsing, neuron tracing, synapse annotation, and visualization. …”
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    3-dimensional electron microscopic imaging of the zebrafish olfactory bulb and dense reconstruction of neurons
  10. 4090
    “…In addition to detection of this virus, characterisation of a 23,832 nt segment of the viral genome revealed the presence of characteristic nidoviral genomic elements providing phylogenetic support for the inclusion of this virus in a novel genus alongside Ball Python nidovirus, within the Torovirinae sub-family of the Coronaviridae. …”
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    Discovery and Partial Genomic Characterisation of a Novel Nidovirus Associated with Respiratory Disease in Wild Shingleback Lizards (Tiliqua rugosa)
  11. 4091
    “…Using the principle of maximum entropy, we developed a method that generates unbiased random sequences with pre-specified amino acid and GC content, which we have developed into a python package. Our method is the simplest way to obtain maximally unbiased random sequences that are subject to GC usage and primary amino acid sequence constraints. …”
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    Online Artículo Texto
    NullSeq: A Tool for Generating Random Coding Sequences with Desired Amino Acid and GC Contents
  12. 4092
    “…Vidjil is implemented in C++, Python and Javascript and licensed under the GPLv3 open-source license. …”
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    Online Artículo Texto
    Vidjil: A Web Platform for Analysis of High-Throughput Repertoire Sequencing
  13. 4093
    “…In this paper, we present an extension of the ASTRA toolbox and its Python interface with implementations of forward projection, backprojection and the SIRT algorithm that can be distributed over multiple GPUs and multiple workstations, as well as the tools to write distributed versions of custom reconstruction algorithms, to make processing larger datasets with ASTRA feasible. …”
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    A distributed ASTRA toolbox
  14. 4094
    “…To facilitate future research in this area, we developed the GO Graph Tool Kit (GGTK), an open source C++ library with Python interface (github.com/paulbible/ggtk).…”
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    The effects of shared information on semantic calculations in the gene ontology
  15. 4095
    “…Open‐source Matlab and Python code implementing the new methods accompanies this article. …”
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    Online Artículo Texto
    A statistical framework for neuroimaging data analysis based on mutual information estimated via a gaussian copula
  16. 4096
    “…AVAILABILITY AND IMPLEMENTATION: MAPPI-DAT is developed in Python, using R for data analysis and MySQL as data management system. …”
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    Online Artículo Texto
    MAPPI-DAT: data management and analysis for protein–protein interaction data from the high-throughput MAPPIT cell microarray platform
  17. 4097
    “…CircularLogo is implemented in JavaScript and Python based on the Django web framework. The program’s source code and user’s manual are freely available at http://circularlogo.sourceforge.net. …”
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    CircularLogo: A lightweight web application to visualize intra-motif dependencies
  18. 4098
    “…National Library of Medicine (NLM). A Python code was used to eliminate duplications in the final bibliography. …”
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    Online Artículo Texto
    A four-part working bibliography of neuroethics: Part 4 - Ethical issues in clinical and social applications of neuroscience
  19. 4099
    “…TADbit is an open-source Python library available for download from https://github.com/3DGenomes/tadbit.…”
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    Automatic analysis and 3D-modelling of Hi-C data using TADbit reveals structural features of the fly chromatin colors
  20. 4100
    “…HGVA provides an efficient and intuitive web-interface for easy data mining, a comprehensive RESTful API and client libraries in Python, Java and JavaScript for fast programmatic access to its knowledge base. …”
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    HGVA: the Human Genome Variation Archive
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