Author Archives: Elin Videvall

About Elin Videvall

Elin is a PhD candidate in the Molecular Ecology and Evolution Lab, Lund University, Sweden. She studies birds and their microbes by analysing genomes, transcriptomes, and microbiomes. You can find her on Twitter: @ElinVidevall

A solution to the N50 misassembly problem

This is the fifth in a series of posts where we explain the N50 (Nx) metric, discuss the problems surrounding it, give solutions to those problems, and suggest an alternative N50 metric for transcriptome assemblies. The misassembly problem of N50 that … Continue reading

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A solution to the N50 filtering problem

This is the fourth in a series of posts where we explain the N50 (Nx) metric, discuss the problems surrounding it (1, 2), give solutions to those problems, and suggest an alternative N50 metric for transcriptome assemblies. In the two … Continue reading

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The N50 misassembly problem

This is the third in a series of posts where we explain the N50 (Nx) metric, discuss the problems surrounding it, give solutions to those problems, and suggest an alternative N50 metric for transcriptome assemblies. In our previous post, we … Continue reading

Posted in genomics | Tagged , , | Leave a comment

The N50 filtering problem

This is the second in a series of posts where we explain the N50 (Nx) metric, discuss the problems surrounding it, give solutions to those problems, and suggest an alternative N50 metric for transcriptome assemblies. The problem with N50 (or … Continue reading

Posted in genomics | Tagged , , | 1 Comment

What’s N50?

This is the first in a series of posts where we explain the N50 (Nx) metric, discuss the problems surrounding it, give solutions to those problems, and suggest an alternative N50 metric for transcriptome assemblies. Most genome assembly papers include … 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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Microbes can rapidly evolve host-protective traits

One of the coolest studies I’ve come across so far this year is the fascinating story about microbe-mediated protection in worms by Kayla King et al. The bacterium Enterococcus faecalis normally causes mild disease in worms (Caenorhabditis elegans). After a week … Continue reading

Posted in evolution, microbiology, mutation | Tagged , , , , , | Leave a comment