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    Discrete Modeling and Structures (Course Materials)
    These are the materials for DCS course offered at Bates College. This is a sampler of structures and ways they are used to model biological and social phenomena.

    Keywords: labsagent-based modelingoctavematlabDiscrete Difference Equationsmatrix modelscoursezombiesbiomath courseeconomicsdemonstrationin-class activitylab protocolproblem sethamlet

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    A Hands-on Introduction to Hidden Markov Models
    A lesson in which students will understand the basic structure of an HMM, the types of data used in ab initio gene prediction, and its consequent limitations.

    Keywords: Markov modelbioinformaticsgenomicsNIBLSEtranscriptionCourseSourceexonintronsplicing

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    Exploration of the Human Genome by Investigation of Personalized SNPs
    To increase students' interest in their own genomes, this computer-based laboratory lesson is designed to be coupled with the opportunity for the students to be genotyped by the consumer sequencing...

    Keywords: bioinformaticsNIBLSECourseSourcegenomic wide association studiesUCSC genome browsersingle nucleotide polymorphism

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    Behavioral Genetics: Investigating the genes of a complex phenotype in fruit flies
    Introductory genetics laboratory published as GSA Learning Resource

    Keywords: behaviorbioinformaticsNIBLSEdrosophilagenetic basisfruit fliesmodel organism

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    Working with plant phenology data and fitting a nonlinear model using least squares in R
    A participatory live-coding lesson on working with NEON phenology data and fitting a sine-wave model to determine when different species get and lose their leaves.

    Keywords: modelingRphenologyNEONRstatscodeparticipatory live-coding

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    NEON Data in the Classroom: Faculty Mentoring Networks Offer a Low-Investment High-Output Means of Creating and Implementing Data-Centric Classroom Materials
    This ePoster presents the Faculty Mentoring Network model as a way to support faculty creation and implementation of data-centric classroom teaching activities. It focuses on the NEON Data...

    Keywords: faculty mentoring networksNational Ecological Observatory Network

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    The Mystery of the Missing Martens
    National Center for Case Study Teaching in Science- this interrupted case study introduces basic modeling to investigate a decline in an American marten population on an island in Southeast Alaska.

    Keywords: modelingsurvivaldata analysisvital ratessurvivorshippopulation ecologyage structurefecundityWildlife Biologymodellingmartensbirth ratelife table

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    Fitzhugh-Nagumo Model
    The FitzHugh–Nagumo model describes a prototype of an excitable system (e.g., a neuron).

    Keywords: differential equationsmathematical modeldifferential equation modelordinary differential equation modelneuroscienceexcitable

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    ModelSim Population Biology Unit
    This resource provides rich student modeling activities and materials, teacher resources, and much more, in the realm of agent based models applied to population biology.

    Keywords: modelingsimulationmoduleEvolutioncase studycurriculumagent-based modelpopulation modeldemonstrationin-class activityPresentation

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    Java Applets for Power and Sample Size
    This is a Java application that allows you to do power and sample-size calculations for a number of standard statistical models.

    Keywords: statisticspowerstatistical powersample sizeeffect sizestatistical tests

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    Hawk vs. Dove Game
    Hawk vs. Dove Game is a model of conflict for two players in game theory.

    Keywords: mathematical modelcomputational modelagent-based model

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    Trout modeling example
    This is an open-ended modeling example using difference equations and Algebra II skills.

    Keywords: population biology

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    Marriage Model (with errors)
    Marriage age model for use with NetLogo and ABM material

    Keywords: computational modelagent-based modelsocial networksmarriageChapter 6Chapter 6.5

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    Data from: Agent-based and Individual-based Modeling: A Practical Introduction, Chapter 5, Exercise 10 [Elevation]
    Supplemental data for ABM

    Keywords: elevationChapter 5exercise

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    ODD Description of the BEFORE Beech Forest Model
    This is a supplemental resource from ABM

    Keywords: case studytextbookNetLogoagent-based modelingODD protocol

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    Marriage age model ODD
    Supplemental resource from ABM

    Keywords: case studytextbookNetLogoagent-based modelingIndividual & Agent Based ModelingODD protocol

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    The ODD protocol: A review and first update
    The ‘ODD’ (Overview, Design concepts, and Details) protocol was published in 2006 to standardize the published descriptions of individual-based and agent-based models (ABMs).

    Keywords: agent-based modelabmstandardizationODD protocolModel descriptionModel formulationScientific communicationChapter 3model replic

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    Draft Version: Energy Balance Models
    This module introduces the student to the process of mathematical modeling.

    Keywords: modulemathematical modelingbenergy balanceclimate modelDIMACSResources @ DIMACSclimatein-class activityResources @ QUBES - Teaching & Referencescienceexperiment

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    Data from: Advancing population ecology with integral projection models: a practical guide
    Review important resources for building IPMs and provide a comprehensive guide, with extensive R code, for their construction.

    Keywords: IPMintegral projection modelsdemographyelasticitylife historymatrix projection modelpopulation growth ratepopulation projection modelsensitivitystage structurevital ratesResources @ DryadResources @ QUBES - Data

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    An Introduction to agent-based modeling.
    Introductory level textbook based on a collection of lecture notes from an undergraduate course on agent-based modeling at Arizona State University.

    Keywords: textbookcurriculumNetLogoagent-based modelingIndividual & Agent Based Modelingcourseundergraduate educationResources @ QUBES - Teaching & Reference

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