Tag: IMPUTE2
impute tool /imputing GTs _ generated imputed file has unexpected no. of cols
Hello, I’m trying to use impute tool to impute more snps using ref panels with my GT data, i followed impute2 tutorial, its example/toy data works fine, then I used the faster impute4 and impute5 tools for mydata as the run gets killed on impute2 with my data. anyways, the…
How to import impute2.dosage files to analyse it in R (GWAS)
How to import impute2.dosage files to analyse it in R (GWAS) 0 Hello all. I want to do a Poisson regression, I have a dataset of 1800 people with 9m SNPs each. First of all, I’m having some trouble importing the info of each SNP, I tried using “gawk” in…
How to calculate r2 for IMPUTE2
How to calculate r2 for IMPUTE2 0 Hi all, I was finally able with all the help to remove some SNPs from the vcf file and then run it through IMPUTE2. This means I have the original vcf and the imputed vcf, how do run r2 analysis? Is there a…
IMPUTE2 -merge_ref_panels
IMPUTE2 -merge_ref_panels 0 Hi all, i am trying to use IMPUTE2 with 2 reference panels to be merged. i am applying the code as per the example provided on IMPUTE2 page. but somehow the merged reference panel doesnt get produced (the REF file as per the example). any ideas? for…
Bioinformatics Scientist in Frederick, MD
Job DescriptionBioinformatics ScientistFull Time Direct Hire Remote positionAre you looking for bioinformatics work? Are you interested in joining a team of talented bioinformaticians dedicated to understanding the genetics of cancer? In this role you will:* Function as a scientific thought leader within for all aspects of GWAS and population genetics….
