Exploratory analysis for donor-recipient whole genome sequences

efficient, accurate, and scalable IBD segment detection with unphased genotype data

Repository for code used in the study "Patterns of population structure and complex haplotype sharing at continental and local scales in field isolates of the green alga Chlamydomonas reinhardtii"

Command Line Python Utility to convert from plink format to Abecasis Lab's QTDT format (used by Merlin).

GWAS Pre-Processing Pipeline

Method to estimate the age and intensity of recent bottlenecks/founder events, using genotype data and a recombination map.

A prototype tool for prioritising identity-by-descent (IBD) variants in Whole Genome Sequencing (WGS) data from families with rare heritable diseases.

Nextflow pipeline to assess the impact of positive selection on Identity by Descent (IBD)-based inferences, utilizing population genetic simulations and true IBD inferences.

A python package to facilitate identity-by-descent-based analysis

A legacy version of the ibdsim2 app for simulating and visualising genetic sharing between pedigree members.

a Rust crate designed to facilitate the analysis of rare-variant sharing and identity-by-descent (IBD) sharing.

Simulate patterns of DNA sharing between pedigree members

Gradient descent for estimating inbreeding spatial coefficients from pairwise-IBD estimates

IBD-based pedigree generation software, built on top of and maximizing utility from the tools PRIMUS and ERSA

Statistical inference of recent positive selection using IBD segments