contains the package of eSMC2 , the second version of the package eSMC

Scalable Maximum Likelihood Estimation of Phylogenetic Models

Lint Cython files

Fast and flexible implementation of generalized linear model in JAX

Python package + CLI for method to infer Ghost admixture tracts from ARGs

Personal collection of diagrams that anyone can freely download and alter.

MATLAB code for estimating crossover interference under the Housworth-Stahl model.

A Jekyll theme for academia

Flexible Trio DNV detection on existing VCFs.

DiamondsDenovo is a tool to calculate enrichment of de novo variants in the genome

Multiple sequence alignment of long tandem repeats

C++ version of SAIGE

Format click help output nicely with rich.

Successful Job Applications and Grants

🧬 High-performance VCF file parser and reformatter with VEP annotation support. Converts complex VCF files to analyzable TSV format with intelligent transcript handling.

A single cell sequencing read simulator.

Plot structural variant signals from many BAMs and CRAMs

Dynamic, adaptive sampling during nanopore sequencing

The GitHub for CLUES2, a method for inferring and evaluating evidence for selection.

Code and data resources accompanying Urbut et al (2017), "Flexible statistical methods for estimating and testing effects in genomic studies with multiple conditions."

Python tool for converting files and office documents to Markdown.

A unified and efficient Python framework for large-scale genomics heritability estimation

Gene Environment Interaction Estimator

The ibd-cluster program uses multi-individual identity by descent to cluster haplotypes

Polygenic Transmission Disequilibrium Test (pTDT)

Toolset for SV simulation, comparison and filtering