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Bastien Rioux

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Activity overview

Latest activity by Bastien Rioux

  • Bastien Rioux commented,

    Hi Alexandra,I ran into a similar issue with Hail and .bgen GEL files.Found it easier to apply a first set of variant filters (eg from the pipeline “End-to-end-GWAS-PheWAS-on-ischemic-heart-disease...

  • Bastien Rioux created a post,

    Olink NPX distribution

    Hi all - Just a quick clarification regarding NPX distributions from Explore 3072. These are roughly around 0 with negative values, which differs from the distribution obtained from Target 96. Thes...

    • Bastien Rioux
    • 2 followers
    • 1 comment
    • 0 votes
  • Bastien Rioux commented,

    Hi George - thanks for your reply.I applied the filter (90% readings with DP≥10) in Hail and I have the same numbers I get when I apply the ukb23158_500k_OQFE.90pct10dp_qc_variants.txt file.Would i...

  • Bastien Rioux created a post,

    Number of sites removed by ukb23158_500k_OQFE.90pct10dp_qc_variants.txt

    Hi all, I am applying a set of QC filters on the whole-exome sequencing and I wanted to validate some numbers with others who might have experience with this file (ukb23158_500k_OQFE.90pct10dp_qc_v...

    • Bastien Rioux
    • 5 followers
    • 6 comments
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  • Bastien Rioux created a post,

    Male heterozygotes on X chromosome

    Hi all, I am working with the WES data set in Hail, on a gene located on the X chromosome. Before quality control, I have 2.5k sites all in a non-pseudoautosomal region (checked with mt_x_m.locus.i...

    • Bastien Rioux
    • 3 followers
    • 2 comments
    • 0 votes