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Tags: Resources @ QUBES - Software

All Categories (1-20 of 36)

  1. Investigating Trade-offs among Mammal Traits

    07 Jun 2018 | | Contributor(s):: Jackie Matthes

    This app draws on a large species-level dataset with metabolic, life history, and ecological traits of most living and recently extinct mammal species. Users can select and plot traits, fit linear models to the data, and query displayed datapoints.

  2. Modeling the Mechanisms of Evolution

    25 May 2018 | | Contributor(s):: Jackie Matthes

    Simulate population-level mechanisms of evolution: genetic drift, gene flow, and natural selection.

  3. R Shiny App Example

    09 May 2018 | | Contributor(s):: Drew LaMar

    This is a simple example used to demonstrate what is needed to host your R Shiny app on QUBESHub.

  4. Avida-ED

    06 Oct 2017 | | Contributor(s):: Robert T Pennock, Diane Blackwood

    Avida-ED is an award-winning educational application developed at Michigan State University for undergraduate biology courses to help students learn about evolution and scientific method by allowing them to design and perform experiments to test hypotheses about evolutionary mechanisms using...

  5. Radiant

    16 Sep 2015 |

    Business analytics using R and Shiny.

  6. Serenity

    25 Jun 2017 | | Contributor(s):: Drew LaMar

    A platform-independent browser-based interface to data science tools for the classroom.

  7. Web Popgen

    05 Jun 2017 | | Contributor(s):: Bob Sheehy

    A Hardy-Weinberg based population genetics simulator. This program assumes a single gene and two alleles. Simulation of allele frequency changes similar to Felsenstein's Simul8 or PopG. Simulates changes in allele frequency based on violations of assumptions of Hardy-Weinberg.  A user...

  8. Jupyter Notebook

    05 May 2017 | | Contributor(s):: Martin Hunt

    Starts the Jupyter notebook server in your "notebooks" directory in your home directory.

  9. Genetic Drift Simulation - NetLogo

    22 Jun 2016 | | Contributor(s):: Tony Weisstein

    This model simulates genetic drift in a population.  The user can control the population size, whether the population is subdivided into separate local populations, and the amount of gene flow (if any) between local populations.  Phenotype frequency in each subpopulation is plotted as...

  10. Wood Density

    15 Oct 2015 |

    Wood density shiny app

  11. GENI-ACT

    24 Jan 2016 |

    GENI-ACT allows collaborative genome annotation. Researchers or students can collectively suggest changes to an existing genome with supporting evidence. Changes can be ported back to genbank by exporting to a sequin file format. GENI-ACT also has ported the education components from IMG-ACT....

  12. OpenRefine

    18 Jan 2016 |

    OpenRefine (formerly Google Refine) is a powerful tool for working with messy data: cleaning it; transforming it from one format into another; and extending it with web services and external data.

  13. DFIELD

    19 Oct 2015 |

    DFIELD is an interactive tool that graphs a direction field for a given differential equation.

  14. Populus: Simulations of Population Biology

    09 Jan 2015 | | Contributor(s):: D. N. Alstad

    This resource has been updated - find the current version here: https://qubeshub.org/publications/352The Populus software contains a set of simulations that we use to teach population biology and evolutionary ecology at the University of Minnesota. Simulation models may be chosen from a...

  15. R Commander

    04 Sep 2015 | | Contributor(s):: Drew LaMar

    R provides a powerful and comprehensive system for analysing data and when used in conjunction with the R-commander (a graphical user interface, commonly known as Rcmdr) it also provides one that is easy and intuitive to use.

  16. Augmented Reality Metabolic Pathways (ARMET)

    25 Aug 2015 | | Contributor(s):: Eduardo Galembeck

    The New Media Consortium (NMC) Horizon Project defines educational technology in a broad sense as tools and resources that are used to improve teaching, learning, and creative inquiry. Within the Horizon Project there are currently seven categories of technologies, tools, and strategies for...

  17. BactVsPhage

    27 Jun 2015 | | Contributor(s):: Drew LaMar

    Simulates basic models in theoretical ecology, as well as three models of bacteria/bacteriophage interactions.

  18. FastQC

    24 Jun 2015 |

    A quality control tool for high throughput sequence data.

  19. Mesquite

    18 Jun 2015 |

    A modular system for evolutionary analysis

  20. ImageJ

    16 Jun 2015 |

    Image processing and analysis in Java.

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