Tag: bfiles

Why and how to address this?

Dear All, I’m preparing data for Mendelian randomization (MR) analysis to assess causal effect of telomere length on kidney phenotype in UK Biobank (UKB) data. The following steps were what I have done:  1. I started to search for prior research summary data and found close to 800 SNPs for…

Continue Reading Why and how to address this?

Plink codes showed GWAS results with effect size (beta) and SE as NA: Why and How?

Plink codes showed GWAS results with effect size (beta) and SE as NA: Why and How? 0 Dear All, I’m preparing data for Mendelian randomization (MR) analysis to assess causal effect of telomere length on kidney phenotype using UK Biobank (UKB) data. The following steps were what I have done:…

Continue Reading Plink codes showed GWAS results with effect size (beta) and SE as NA: Why and How?

runs of homozygosity

runs of homozygosity 0 I am finding runs of homozygosity,. Step by step moving i have found RoHs first then i made plink bfiles updated ids then recoded vcfs then phased chromosome-wise and merged into one and now i have again changed it into the beagle format using vcf2beagle software…

Continue Reading runs of homozygosity

merge bfiles with different allele format by plink

merge bfiles with different allele format by plink 0 Hello, I want to merge two bfiles using plink. However, one bfile is written as below. 1 rs123 0 123 A G 1 rs234 0 234 G T The other file is as below. 1 rs123 0 123 1 2 1…

Continue Reading merge bfiles with different allele format by plink