Category Archives: bioinformatics

Mapping genomes and navigating behavior for wildlife conservation

Virginia Aida wrote this post as a final project for Stacy Krueger-Hadfield’s Science Communication course at the University of Alabama at Birmingham. She is currently evaluating a potential pharmacotherapy in traumatic brain injury and anticipates graduating with her MS in summer 2017.  Although she … Continue reading

Posted in adaptation, association genetics, bioinformatics, blogging, conservation, domestication, evolution, natural history | Tagged , , , , , , | Leave a comment

Small Molecules, Big Differences

Mary Latimer wrote this post as a final project for Stacy Krueger-Hadfield’s Science Communication course at the University of Alabama at Birmingham. She is a third year PhD student at UAB studying miRNAs and methionine restriction. Her hobbies include cats, netflix, … Continue reading

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Polyploidy in the era of GBS

Ploidy, dear reader, is something that I think about literally all the time. It impacts every facet of my research from the field to the bench to the stats used to analyze data sets. It’s been simultaneously the greatest and the … Continue reading

Posted in bioinformatics, evolution, genomics, haploid-diploid, Molecular Ecology, the journal, natural history, plants, speciation | Tagged , , , , | 1 Comment

Molting on the molecular level: how blue crabs become soft-shell crabs

Megan Roegner wrote this post as a final project for Stacy Krueger-Hadfield’s Science Communication course at the University of Alabama at Birmingham. Megan spent her early years in Cape Town, South Africa playing in the tidal pools along the coast and developing … Continue reading

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Music to an amniote’s ears, an “accordion” model of genome size evolution

How did we get where we are? Genetically speaking, that is. A few posts ago, that whole genotype-phenotype question was discussed, how do genomes make plants and animals (and don’t forget the microbes!) look and act how they do. Another … Continue reading

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Phylogenetic trees in R using ggtree

Recently, one R package which I like to use for visualizing phylogenetic trees got published. It’s called ggtree, and as you might guess from the name it is based on the popular ggplot2 package. With ggtree, plotting trees in R has … Continue reading

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Handling microbial contamination in NGS data

Until recently, I had given little thought to the potential for unwanted microbial contamination in high throughput sequence data. I suspect that if you’re a molecular ecologist who doesn’t primarily study microbes or work with ancient DNA, you’re in a … Continue reading

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