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    2012-Nokkaew-EtAl-Estimation of Algae Growth Model Parameters by a Double Layer Genetic Algorithm
    This paper presents a double layer genetic algorithm (DLGA) to improve performance of the information-constrained parameter estimations.

    Keywords: optimizationalgae growthgenetic algorithmssimulated dataconvergence of parameters

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    1999-Khorasheh-Ahmadi-Gerayeli-Application of Direct Search Optimization for Pharmacokinetic Parameter Estimation
    For simple pharmacokinetic compartmental models, analytical solution to the governing differential equations provide a mean to evaluate the associated rate constants. Such methods, however, can not...

    Keywords: sum of square errorsleast squarespharmacokineticslineteicscompartmental modelsdirect search

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    The Tactile Clade Race
    This adaptation of the Vertebrate Clade Race provides a tactile approach to introduce basic tree reading skills for evolutionary phylogenies. Using a Universal Design for Learning informed...

    Keywords: phylogeneticsevolutionary biologytree readingvertebratesaccessibility for students with disabilities or impairmentsvisual impairment

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    Evolution of Tusklessness in African Elephants
    The exploitation of African elephants in the form of ivory poaching is exacerbated by warfare. The affects of this anthropogenic evolutionary force on the African savanna elephant (Loxodonta...

    Keywords: Hardy-Weinbergchi-squaredEvolutionExponentsRatiospercentselephantsGorongosa National ParkAfricaqbccUnderstanding fractionsSolving Equations and InequalitiesConcepts in Statisticsusing statisticstusk & tusklessIvory poachingFractions and Mixed NumbersDecimals

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    1-085-DrugBolus-ModelingScenario
    Given data on the concentration of a drug in the plasma of a human in mg/L at certain time intervals in hours can we determine the rate at which the drug leaves the plasma as well as the initial...

    Keywords: concentrationsum of square errorsbolusdrugrate constantadminister

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    3-090-OneSpringMass-ModelingScenario
    We lead students through building a mathematical model for a single mass (bob)-spring system that is hanging vertically. We also lead the students, using data that they collect together with their...

    Keywords: undampedsum of square errorsmass springHooke's Lawoscilationleast-squares approximation

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    2018-Van_Kinh Nguyen-Esteban_Hernandez-Vargas-Parameter estimation in mathematical models of viral infections using R
    Mathematical modeling has played a central role to understand mechanisms in different viral infectious diseases. In this approach, biological-based hypotheses are expressed via mathematical...

    Keywords: simulationdiseasevirusviral infection

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    Investigating human impacts on Southeastern US stream ecology using R
    Adaptation of the "Investigating human impacts on stream ecology: Scaling up from Local to National with a focus on the Southeast" specifically to focus on self-paced R code instruction
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    Analyzing Nutrient Simulation Experiments with a one-way ANOVA
    We discuss what tests are appropriate to analyze the data from nutrient simulation experiments. They will conduct one-way ANOVAs and a post hoc test using a dummy dataset and interpret the results.

    Keywords: biostatisticsInterdisciplinary STEMR programming languageaquatic ecologylimnologySwirl

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    An Introduction to Statistical Learning: with Applications in R
    This book provides an introduction to statistical learning methods and is aimed for upper level undergraduate students, masters students and Ph.D. students in the non-mathematical sciences.

    Keywords: linear regressiontextbookclassificationcourseclustering coefficientR programming languagestatistical learningmachine learninglogistic regressionresamplingmodel selectionGeneralized additive modelsdecision treesprincipal components analysisMOOCResources @ QUBES - Teaching & Reference

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    Sequence Similarity: A Quick Introduction to Bioconductor
    Following the Sequence Similarity exercises by Kleinschmit, et al., this tutorial will guide students in using the Bioconductor suite of R packages to likewise compute sequence similarity.

    Keywords: bioinformaticssequencingNIBLSEmultiple sequence alignmentsequence similarityBLOSUM scoring matrixBioconductor

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    Value of Mistakes. Making Mistakes Using R
    This module allows students to frame mistakes and frustrations during their first introduction to R in terms of improved learning and growth mindset.

    Keywords: growth mindsetmath attitudesResources @ BIOMAAPmistakesvalue of mistakes

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    SEIR simulation activity for flattening the curve
    This is a short exploration activity to introduce SIR and SEIR models without explicitly introducing differential equations. It utilizes the R package EpiDynamics and students can run the...

    Keywords: RRStudioInfectious Disease ModelingSIR modelsSIRseircovidcoronavirus

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    Graphing grouped continuous data in R with swirl
    This lesson helps students know some of the options for how to graph grouped continuous data (such as those involved in doing a t-test or ANOVA) and how to choose the best option.

    Keywords: biostatisticsR programming languageSwirl

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    Island Biogeography
    The students will practice the basic code to test MacArthur and Wilson’s (1967) Island Biogeography model, focusing on how island size, distance, and perturbation affect species numbers.
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    Optimal Foraging in Swirl
    This lesson centers around the marginal value theorem (MVT, Charnov 1976), which describes how animals should forage in patches. It serves as a pre-lab to teach MVT basics, vectors, ANOVA, and...
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    Exploring the functionality of R
    Students work with example data to generate a length-weight plot and use lm() to obtain regression coefficients. Base plot functions are used to plot both the data and the regression line.
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    Performing a Population Viability Analysis from Data Students Collect on a Local Plant
    Experiment included in Teaching Issues and Experiments in Ecology (TIEE) Volume 9

    Keywords: RResources @ ESA - TIEEmatrix model

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    DCS 105 Calling Bull F24 Schedule
    Schedule overview for Bates College Course DCS 105 Calling Bull

    Keywords: datacalling bullmisinformationBates CollegeSchedule

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    Calling Bullshit DCS 105 Bates College RByte Worksheets
    These are handout worksheets for your in-class RByte activities.

    Keywords: RActivityGoogle CoLabCalling BullshitRByteData PracticeCoding SkillsSkill development

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