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A Framework for Modeling to Encourage Interdisciplinary Conversations
11 Oct 2016 | Teaching & Reference Material | Contributor(s): Carrie Diaz Eaton
This resource has been updated - find the current version here: https://qubeshub.org/publications/209Here we present a framework for thinking about what models and modeling are, particularly to other disciplines. We encourage that differing disciplinary approaches are seen as part of a...
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A Framework for Teaching Modeling to Biologists
10 Oct 2016 | Teaching & Reference Material | Contributor(s): Drew LaMar
This resource has been updated - find the current version here: https://qubeshub.org/publications/210What are the modeling skills and metacognitive strategies of importance for the life sciences? In this talk, we describe a teaching and learning framework around modeling...
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A Laboratory Class Exploring Microbial Diversity and Evolution Using Online Databases, the Biology Workbench, and Phylogenetics Software
29 Sep 2015 | Teaching & Reference Material | Contributor(s): Sarah Boomer, Kelly Shipley, Bryan Dutton, Daniel Lodge
Students assemble and align bacterial datasets using DNA information downloaded from the National Center for Biotechnology Information website and Biology Workbench. Specifically, they compare unknown original DNA sequences (from, in our case, hot spring communities) to a backbone of...
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A Quick Guide to Teaching R Programming to Computational Biology Students
03 Jun 2015 | Teaching & Reference Material | Contributor(s): Stephen Eglen
This resource has been updated - find the current version here: https://qubeshub.org/qubesresources/publications/838An introduction from an experienced educator in teaching R to computational biology graduate students. Contains information that is relevant for the undergraduate classroom...
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A very basic tutorial for performing linear mixed effects analyses: Tutorial 2
24 Apr 2015 | Teaching & Reference Material | Contributor(s): Bodo Winter
This resource has been updated - find the current version here: https://qubeshub.org/qubesresources/publications/833This tutorial serves as a quick boot camp to jump-start your own analyses with linear mixed effects models. This text is different from other introductions by being decidedly...
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BactVsPhage
27 Jun 2015 | Software (On-site) | Contributor(s): Drew LaMar
Simulates basic models in theoretical ecology, as well as three models of bacteria/bacteriophage interactions.
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BioRadiant
19 May 2015 | Software (On-site) | Contributor(s): Drew LaMar
Interactive statistics package using R and Shiny.
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Cell Biology by the Numbers
21 Jan 2015 | Teaching & Reference Material | Contributor(s): Ron Milo, Rob Phillips
This resource has been updated - find the current version here: https://qubeshub.org/qubesresources/publications/819Vignettes that reveal how numbers serve as a sixth sense to understanding our cells.Sample figures:[[Slider(105-f3-ViralMeasuringTape-13.png,...
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Collecting and analyzing binomial data
17 Jul 2020 | Software (On-site) | Contributor(s): Suann Yang, Darcy Taniguchi, Jenny Hazlehurst
In this tool, students watch an Internet cat video, collect binomial data on cat paw usage, and graph and analyze the data with a binomial test in R using the swirl package.
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Cookbook for R
10 Jan 2015 | Teaching & Reference Material | Contributor(s): Winston Chang
This resource has been updated - find the current version here: https://qubeshub.org/qubesresources/publications/780The goal of the cookbook is to provide solutions to common tasks and problems in analyzing data.
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Course materials for computational genomics using R
19 Nov 2015 | Teaching & Reference Material | Contributor(s): Hong Qin
This resource has been updated - find the current version here: https://qubeshub.org/qubesresources/publications/907The R code and data are deposited at Github: https://github.com/hongqin/RCompBio
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Dairy Farm Mathematics
09 Jul 2015 | Teaching & Reference Material | Contributor(s): Richard Francisco, Katie Gilbert
This resource has been updated - find the current version here: https://qubeshub.org/qubesresources/publications/783From the website:We based our instructional unit on the premise that many people have, that one does not need mathematics if the they do not plan on attending...
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Data Analysis for the Life Sciences
25 Sep 2015 | Teaching & Reference Material | Contributor(s): Rafael A Irizarry, Michael I Love
This resource has been updated - find the current version here: https://qubeshub.org/qubesresources/publications/841An online stats book written completely in R!From the authors:"Data analysis is now part of practically every research project in the life sciences. In this...
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DataCamp
06 Nov 2016 | Teaching & Reference Material | Contributor(s): Drew LaMar
This resource has been updated - find the current version here: https://qubeshub.org/qubesresources/publications/913The Easiest Way to Learn Data Science OnlineMaster data analysis from the comfort of your browser, at your own pace, tailored to your needs and expertise. Whether...
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Disease Spread Simulation with M&M's and Information on the wider SIMIODE community
03 Jul 2015 | Teaching & Reference Material | Contributor(s): Brian Winkel
This resource has been updated - find the current version here: https://qubeshub.org/publications/358This is a Student Version of a Modeling Scenario from the community, SIMIODE - Systemic Initiative for Modeling Investigations and Opportunities with Differential Equations at...
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E. coli Citrate Use
24 Aug 2015 | Teaching & Reference Material
This resource has been updated - find the current version here: https://qubeshub.org/publications/357Bacteria are excellent model organisms for studying evolution. They are easy to grow, maintain, and handle under very controlled conditions. Even more importantly for evolution...
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Ecology and Epidemiology in R
09 May 2015 | Teaching & Reference Material
This resource has been updated - find the current version here: https://qubeshub.org/qubesresources/publications/837
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Ecology and Epidemiology in R
09 May 2015 | Teaching & Reference Material
This resource has been updated - find the current version here: https://qubeshub.org/qubesresources/publications/837
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Free Introduction to R Course at DataCamp
06 Nov 2016 | Teaching & Reference Material | Contributor(s): Drew LaMar
This resource has been updated - find the current version here: https://qubeshub.org/qubesresources/publications/914In this introduction to R, you will master the basics of this beautiful open source language, including factors, lists and data frames. With the knowledge gained in this...
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Google Charts Example - Bubble
18 May 2018 | Software (On-site)
This is the "bubble" example from Joe Cheng's Google Charts package.