Author Archives: Ethan Linck

About Ethan Linck

I'm a Ph.D. Candidate at the Department of Biology and the Burke Museum of Natural History, University of Washington, Seattle. My research uses museum specimens and genomic data to analyze and archive avian biodiversity and evolution, particularly in western North America and Melanesia.

Current geography has little to say about gene flow during divergence

The terms we use to describe the geography of speciation are deceptively simple. Mention allopatry, parapatry, or sympatry, and most biologists will have a clear picture of the underlying conceptual model of range limits (and probably some strong opinions about … Continue reading

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Live from #Evol2017 – Saturday Highlights

A subset of the Molecular Ecologist team is attending this year’s Evolution meeting in Portland, Oregon. As part of our coverage of the meeting, we will recapping the highlights of each day here on the blog, and occasionally previewing upcoming presentations. … Continue reading

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On hyRAD-X, another option for museum genomics

Last year, I profiled Suchan et al.’s “hyRAD” method for reduced-representation genome sequencing of degraded sources of DNA using RAD probes. While it’s too early to say whether hyRAD will be widely used by molecular ecologists looking to integrate historic … Continue reading

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Posted in genomics, methods, natural history, next generation sequencing, phylogenetics, phylogeography, population genetics, RNAseq, selection, transcriptomics | Tagged , , , | Leave a comment

Right reads, wrong index? Concerns with data from Illumina’s HiSeq 4000

Commanding around a 70% share of a 1.3 billion USD market, Illumina is the major player in next-generation sequencing (NGS) technology. More likely than not, if you’re a molecular ecologist working with NGS data, you’ve run your samples on a … Continue reading

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Posted in genomics, next generation sequencing, RNAseq, technical, transcriptomics | Tagged , , , , | 5 Comments

An Update on the Great BAMM Controversy

Update, 01 August 2016, 2:50PM. This post has been updated to include information contained in the supplemental material of Rabosky et al. 2017, and clarify the difference between branch-specific and tree-wide rate variation. Back in August, I summarized the main … 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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A Primer on the Great BAMM Controversy

Update, 26 August 2016, 2:30PM. A number of readers brought my attention to a series of blog posts by Moore et al. responding to Rabosky’s rebuttal of their published critique of BAMM. I’ve included links to the posts and summarized their … Continue reading

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Posted in evolution, phylogenetics, software, speciation | Tagged , , , , , , | 5 Comments