Recs for what to use for analyzing IBS sharing (from phased, imputed VCFs)?
I have imputed GZ.VCFs from Beagle 4.0 based on some ancient DNA VCFs (24 individuals). Beagle phased the genotypes in their output.
I am looking to do some IBD tract sharing analyses between 24 samples. Does anyone have recommendations on what software package to use for the imputation?
0 answers
No answers yet.
Log in to answer this question.
More posts like this
-
Navigating Haplotype-Based Association Studies: Software Recommendations and Conversion Challenges
written by PKW •
-
Help finding GTEx v8 Imputed Genotypes
written by JourneyToAbyss
-
How do I get PyVCF to give me an error if the record it is fetching doesn't exist?
written by devenvyas
-
Imputating individual haplotype phase w/o Plink
written by los •
-
Creating Reference Set for Beagle Imputation
written by seangallaghr •
-
Can BEAGLE run efficiently on a laptop?
written by paul.watkins •
-
General approach for genotype refinement after GATK processing?
written by nchuang
-
how can I make input file for Haploview from Output files of inferred haplotypes by fastPHASE?
written by mary
-
Phased And Imputed Genotypes For Hapmap Samples With Plink Format
written by J.F.Jiang
-
Imputation Process For Hapmap Genotypes
written by J.F.Jiang
