How to calculate LD statistics using unphased haplotypes with vcftools
I want to calculate the LD statistics with SNP data using vcftools. But the genotype is unphased. Is there any way to calculate the LD with unphased genotype using vcftools. Thank you
• 2,432 views
•
link
written
by
Chenfei Zheng
0 answers
No answers yet.
Log in to answer this question.
More posts like this
-
How to choose the appropriate window size for Fst calculation
written by Chenfei Zheng
-
How to replicate vcftool's sliding window SNP density?
written by serpalma.v •
-
How to define the LD interval where a SNP locates?
written by Tao
-
012 genotype matrix using vcf tools
written by Ana
-
calculating LD-tools to calculate D' in DNA sequencing data with unphrased genotype
written by ren.yingxue •
-
Extract nucleotide read quartet from vcf file
written by berge2015
-
Vcftools r2 Error: Insufficient sites remained after filtering or No data left for analysis!
written by hellbio
-
Use LD statistics to find proxy SNP
written by sabir.saluja •
-
VCFtools LD calculations only for pairs that include a single SNP of interest
written by Scott
-
Identify haplotype block using unphased genotype data
written by slykuaias •
