HaploVar - Defining Local Haplotype Variants for Use in Trait Association
and Trait Prediction Analyses
A local haplotyping tool for use in trait association and
trait prediction analyses pipelines. 'HaploVar' enables users
take single nucleotide polymorphisms (SNPs) (in VCF format) and
a linkage disequilibrium (LD) matrix, calculate local
haplotypes and format the output to be compatible with a wide
range of trait association and trait prediction tools. The
local haplotypes are calculated from the LD matrix using a
clustering algorithm called density-based spatial clustering of
applications with noise ('DBSCAN') (Ester et al., 1996) <ISBN:
1577350049>.
