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If you are like me and like to massively parallelize jobs then you may come across the following, initially cryptic error when using ..read more
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I often have a ton of vcf files, which I would like to compress using bgzip and index using tabix, which is necessary for many downstream ..read more
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Today I was, just like any other day, looking at structural variants (SVs) from Oxford Nanopore PromethION data, aligned using minimap2 and ..read more
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In a previous post I looked at SVIM, a new structural variant caller intended for long reads. Since then some changes have been done, and ..read more
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Although it was available for a longer time already, in December the long read structural variant (SV) caller SVIM was published as a ..read more
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My NanoPlot tool includes plots showing the decline in base call quality and sequencing speed over time, see below. Sequencing speed ..read more
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Highly similar to my previous post comparing read length and yield on PromethION I today checked the correlation between the pore count on ..read more
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It has been suggested by other PromethION users that there is an inverse correlation between read length of the library and the yield of ..read more
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We started using PromethION about a year ago, but the good flow cells started arriving from February onwards. Below I have an overview of ..read more
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As I’m getting closer to the end of my PhD it doesn’t hurt to take a look at some basic genetic principles. Let’s start with genetic ..read more

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