Tag Archives: phylogenetics

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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Posted in bioinformatics, howto, phylogenetics, R | Tagged , , , | 1 Comment

Quick and dirty tree building in R

One of the major obstacles to turning your sequence data into phylogenetic trees is choosing (and learning) a tree-building program. Confounding this problem is the fact that most researchers will want to perform numerous, complementary analyses, each of which may … Continue reading

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Posted in howto, methods, phylogenetics, R, software | Tagged , , , , , , , | 2 Comments

Grasping gorgonians

A recent issue of Heredity focused on the brave new world of environmental genomics. After highlighting the special issue, I started chatting to one of the contributors, Eric Pante and became interested in his work on gorgonians. Eric and his co-authors explored the … Continue reading

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Posted in bioinformatics, Coevolution, evolution, genomics, mutation, phylogenetics | Tagged , , , , , | 1 Comment

#EntSoc14, a quick review

I have had a wonderful time at my first big bug conference – the annual meeting of the Entomological Society of America, at the Oregon Convention Center in Portland. Amid secretive (or not so secretive) break-out sessions to Voodoo Doughnuts, … Continue reading

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Posted in conferences, genomics, phylogenetics, population genetics | Tagged , , , | 1 Comment

A tale of two Dryad submissions

As it happens, the last two scientific papers I’ve had accepted for publication are also the first two papers for which my first-authorial duties included some substantial journal-mandated archiving of supporting data (beyond uploading a handful of DNA sequences to … Continue reading

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Posted in data archiving, peer review | Tagged , , , , , | 8 Comments