heritability

Heritability in plant breeding - R and SAS code examples

Sample code for ldsc analyses in UKBB

Code and Tutorials for Running the MArginal ePIstasis Test (MAPIT)

Containerized workflow for analysis of human diabetic kidney disease by snRNA-seq and snATAC-seq

Code and simulations using interaction-LD score regression

Highly Efficient Imaging Genetics (HEIG)

Topological Learning for Brain Networks (Annals of Applied Statistics; MICCAI 2021)

MultiVariate Polygenic Mixture Model

gwas workflow from raw intensity data to in-silico functional mapping

Python package for partitioning GWAS heritability into cell-intrinsic (node) and cell-cell communication (edge) components from spatial transcriptomics.

A library for calculating penetrance tables of any bivariate epistasis model.

Head-to-head benchmark of 6 peak–gene linkage methods on a colon single-cell atlas (Hickey 2023), ranked by IBD GWAS heritability partitioning — surfacing three methodological caveats not addressed in the original publications.

Pedigree Relatedness Summary Parameters R package

The project focused on the analysis of foxes from 3 different farms and the subsequent presentation of trait heritability results, genetic trends, breeding values and relationship matrix.

Regional Heritability Analysis is a software package for estimating regional heritability of small genomic segments.

Genomic and phenomic prediction of agronomic traits and malt quality in NY Winter Malting Barley

HESS pipeline

A statistical framework for whole-genome estimation, selection, and prediction at biobank scale with GPU acceleration

BioTools is a repository that has many scripts which can be utilized to solve biological problems.

Analysis scripts and reproducibility materials for the EJP manuscript “Familial Correlation between Personality and Stress Exposure: Insights from the Multigenerational Lifelines Cohort Study”.