Tag Archives: bioinformatics

Easily aggregate bioinformatic sample output with one tool

Today I’m going to write about one of my favorite bioinformatic tools, MultiQC. If you’ve used it, you know why, and if you haven’t, prepare to be amazed. Many bioinformatic software produce output on a per-sample basis. That is, you … 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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Using R to mine species data

Many of us generate more data than we know what to do with (speaking of which: keep an eye out for the 2016 NGS Field Guide, coming soon!), so it’s easy to forget about the piles of data already at our fingertips. Research potential is … Continue reading

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To find duplicated loci in vertebrate polyploids, try thinking small

Big sequencing efforts have gone a long way to help understand the complexities of polyploidy. However, the bioinformatic approaches to sorting and scoring alleles in next-gen data are generally designed for easy of use in diploid species. Unlike a diploid species, where … Continue reading

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The 2016 Workshop on Genomics summary

I recently had the pleasure to spend two and a half weeks in the beautiful medieval town of Český Krumlov, Czech Republic. The reason was the popular Workshop on Genomics that was running and I was one of the TAs … Continue reading

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