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• Genotyped SNPs were lost after michigan imputation server imputation and phasing
  Hi All, I run a imputation and phasing with 'michigan imputation server' for exom-beadchip arra...
• Genotyped loci changed after imputation by Minimac4
  I ran Minimac4 to do imputation on the basis of ~750,000 loci that were genotyped. The reference ...
• QC after imputation
  Hello everyone, I am currently working with some imputed genotype data and hope you could help ...
• Quality control after genotype imputation
  Can anyone kindly explain me the possible ways of quality control of imputed data? Any reference ...
• Is there any software or script to evaluate the accuracy of genotype imputation? Thanks!
  I want to calculate the accuracy of the genotype imputation data obtained by IMPUTE2.
• Convert IMPUTE2 to VCF while keeping phase information
  Hi,   I have imputed genotypes using the IMPUTE2 software. Now I need to convert my IMPUTE2 form...
• Negative values for imputed genotypes on X chromsomes in females
  Hi there, I imputed a set of around ~10k individuals using the sanger imputation server (1000 Ge...
• Why does genotype data change after genetic imputation?
  Hello, I am trying to perform genetic imputation on TCGA genotype data so I can perform a GWAS-t...
• why the Michigan Imputation Server for chrX imputation quality control fails?
  There are only non par in my chrX, when I perform genotype imputation by Michigan Imputation Ser...
• General Imputation Softwares To Impute Missing Genotypes In Candidate Gene Studies
  I know that we can impute missing genotypes in GWAS studies by inferring from the Hapmap or 1000-...
• Genotype Imputation
  Hi, Is there any tutorial for genotype imputation? Suppose the poputation is chb+jpt. I am newb...
• Information loss in .bgen to .bed conversion
  I have a .bgen file of imputed genotyping calls (plus corresponding .sample file), and I have con...
• Merging SNPs from multiple imputation runs
  Hi, I have imputed genotypes surrounding a number of genes using IMPUTE2. Some of these genomic ...
• Preference about IMPUTATION TOOL
  "Which Imputation tool is broadly used?" "Which Imputation method do you use? and why?" In thes...
• genotype imputation pipeline
  Hello. I'm trying hard to go through the genotype imputation pipeline, unsuccessfully though. I...
• How to get imputation accuracy/quality after using IMPUTE2?
  I know I might be missing something obvious, but how do I get the accuracy/quality of my imputati...
• Imputation for genotyping data
  The imputation method used to impute genotype is usually used for GWAS data. Can this be used for...
• TopMed imputation server
  Hello, I imputed my data with TopMed imputation server, and now I have 3 problems 1- I have no...
• Phased And Imputed Genotypes For Hapmap Samples With Plink Format
  Hi all, I am looking for the phased and imputed genotypes for hapmap samples with plink format. ...