jrisse

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jrisse
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Wageningen
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  • Hi, I have a similar problem. I'm trying to filter a large vcf file (23Gb unzipped) to select high quality SNPs. The reference is a draft assembly with a lot of smallish contigs and the genome size is 2.1Gb. The vcf contains around 260 samples. The…
  • Hi Geraldine, A related question on data of one sample merged across lanes, does the optical duplicate detection take into account the lane info in the read name or does it just take tile and coordinate info (i.e. counting the the same read on X/Y …