Abstract
Summary Haplotype Trend Regression with eXtra flexibility (HTRX) is an R package which uses cross-validation to learn sets of interacting features for a prediction. HTRX identifies haplotypes composed of non-contiguous single nucleotide polymorphisms (SNPs) associated with a phenotype. To reduce the space and computational complexity when investigating many features, we constrain the search by growing good feature sets using ‘Cumulative HTRX’, and limit the maximum complexity of a feature set.
Availability HTRX is implemented in R and is available under GPL-3 license from CRAN and Github at: https://github.com/YaolingYang/HTRX.
Contact yaoling.yang{at}bristol.ac.uk
Competing Interest Statement
The authors have declared no competing interest.
Copyright
The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under a CC-BY 4.0 International license.
Posted December 02, 2022.
HTRX: an R package for learning non-contiguous haplotypes associated with a phenotype
