Haplotype Trend Regression with eXtra Flexibility (HTRX)
Compute variance explained by models
Data split
Cumulative HTRX on long haplotypes
Two-stage HTRX: Model selection on short haplotypes
Direct HTRX: k-fold cross-validation on short haplotypes
HTRX: Haplotype Trend Regression with eXtra flexibility
Maximum independent features for HTRX
Total number of features for HTRX
Generate haplotype data
Model fitting
Detection of haplotype patterns that include single nucleotide polymorphisms (SNPs) and non-contiguous haplotypes that are associated with a phenotype. Methods for implementing HTRX are described in Yang Y, Lawson DJ (2023) <doi:10.1093/bioadv/vbad038> and Barrie W, Yang Y, Irving-Pease E.K, et al (2024) <doi:10.1038/s41586-023-06618-z>.