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lowbrowR

Nathan Brouwer

Recently Published

How do I calculate percent identity of two sequences in R?
Building dotplots in R to analyze sequence data
Setting up sequence data for making dotplots in R
Higgs and Atwood Chapter 2 - part 1
Euclidean distances
Predicting protein structural classes with amino acid composition - KEY
FAQ: How do I make a scatterplot in R when my data is in two vectors?
A example FAQ entry for BioSci 1540
BioSci 1540 - Fall 2021 - Final portfolio example output
Introduction to Palmer Penguins data
Building dataframes from vectors
Basic line of best fit / regression example
Predicting protein structural classes with amino acid composition
Drawing protein diagrams with drawProtein()
Predicting amino acid chemical characteristics with regression
Review Portfolio - downloading, cleaning, and aligning data
Pie charts assignment
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Working directories in R exercise
A sample bioinformatics workflow
Downloading DNA sequences as FASTA files in R
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Test render of a Libretext page to RMarkdown
Amino acid PCA demo
Analysis of amino acid data with PCA
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Unit 2 test review 9/24/2020
Computational Biology: Determining Extinction Risk
Computational Ecology: Simulating population dynamics
The explores code needed to run population simulations. All populations vary in size from year to year. Even if they are consistently growing, consistently shrinking, or staying stable, there will be variation year to year. If we want to project population dynamics into the future we need to take into accound this variation. We do this by randomly selecting values for key parameters. But the values aren’t totally random - they need to be grounded in reality.
Computational Ecology: The Bears of Yellowstone National Park
This document introduces a classic dataset used in computational popualtion ecology - the population dynamics of Grizzley Bears in Yellowstone National Park. That data were first pulished in Figure 5 of Deenis et al (1991), who extracted the data from other sources. Morris and Doak (2002) then added additional years of data. I will build up the dataset piece by piece and explain the R code used to create all the parts.
Bears n'at
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