User: catarinaglmg

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catarinaglmg10
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Posts by catarinaglmg

<prev • 6 results • page 1 of 1 • next >
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Troubles codifying XY and PAR in HAIL
... Hi! I want to import .bgen files in Hail but I need to index them first and I'm having some troubles codifying pseudo-autosomal regions and XY regions in Hail. I need to use a dictionary for "contig_recoding" in order to solve this (I think). Does anyone know how to it properly? Thank you very muc ...
xy hail par bgen written 3 months ago by catarinaglmg10
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Comment: C: Genotype concordance for vcf.gz
... Thanks Kevin! I solved it with bcftools sort - there's no need to uncompress to sort files - and then bcftools stats -v to compare between files ...
written 3 months ago by catarinaglmg10
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Answer: A: Making a phenotype file in PLINK
... Hi! Did you solve this? ...
written 4 months ago by catarinaglmg10
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Comment: C: Genotype concordance for vcf.gz
... I want to confirm if the genotypes are the same in my original vcf file versus the same annotated file. I'm also not entirely sure if they both are sorted (which can be a potential comparison problem for some tools). I just want to check that I didn't lose information in the process. (In a multisamp ...
written 5 months ago by catarinaglmg10
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Genotype concordance for vcf.gz
... Hi! Does anyone know any tool that allows to compare genotypes between two compressed vcf files (.vcf.gz)? (Or any ideas how can I do it without decompressing?) Thanks! ...
vcf vcf.gz genotypes vcf comparison written 5 months ago by catarinaglmg10
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Comment: A: Hwo to do quality control steps on UKBiobank data?
... Hi! Did you manage to solve this? ...
written 5 months ago by catarinaglmg10

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