In part one I demonstrated how we can use gene annotations to quickly generatesynteny plots using MCscan. Here, we’ll narrow in a bit and generate synteny plotsfor fine-grain structural changes using Syri and genome alignments.Thumbnail from: https://github.com/schneebergerlab/syri<hr...

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Published on June 03, 2022 | 12 min read

Comparing genetic sequences is a common task in genomics. There are a range of methods to evaluatethe similarities and differences within and between organisms. Here, I’ll demonstrate how to generatea ribbon plot between two chromosomes. Thumbnail from: https://github.com/tanghaibao/jcvi/wik...

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Published on June 02, 2022 | 14 min read

At Adelaide University we have access to the Phoenix HPC. This system is perfect for largecompute jobs that exceed the capabilities of our own personal computers. I’ve put togethera little something to help first time users onto the system.<h1 id="the-phoenix-high-performance-c...

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Published on October 05, 2021 | 16 min read

Often we want to transfer data from a cluster to a cloud storage location so it can be sharedwith someone. Here, I walk through how to set up RClone on Phoenix to enable simple data transferfrom Phoenix to Box.IntroductionA tricky aspect of worki...

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Published on July 28, 2021 | 11 min read