Stars
Custom python functions to help you further analyse machine learning models and diagnostic test
Tutorial on large language models for genomics
Explore a comprehensive collection of basic theories, applications, papers, and best practices about Large Language Models (LLMs) in genomes.
Practical introduction to neural networks with Pytorch and Lightning
Provides a number of methods for creating and augmenting Latin Hypercube Samples and Orthogonal Array Latin Hypercube Samples
A cd command that learns - easily navigate directories from the command line
Oesophago-gastric cancer risk prediction on EHR data - comparison of a range of ML techniques
Slides and materials for most of my talks by year
One day workshop for machine learning with scikit-learn
Breast cancer risk prediction using genotyped data
Machine Learning approach for genetic risk prediction. I applied a modified, XGBoost algorithm and an iterative SNP selection algorithm to find the top features (SNPs) that best predict the risk of…
Polygenic prediction via continuous shrinkage priors
The Polygenic Score Catalog Calculator is a nextflow pipeline for polygenic score calculation
Fine-tuning polygenic risk score models using GWAS summary statistics
Reproducible code for running the analyses in the paper "Fast and Accurate Bayesian Polygenic Risk Modeling with Variational Inference" (2023)
Polygenic risk modeling with latent trait-related genetic components
A curated list for preprocessing, cleaning, mapping and analyzing UK Biobank data.
pandasGWAS: a Python package for easy retrieval of GWAS Catalog data
A Python module for loading phenotypic and genetic data from the UK Biobank.
A list of awesome resources for Computational Social Science
A Snakemake workflow for calling small and structural variants under any kind of scenario (tumor/normal, tumor/normal/relapse, germline, pedigree, populations) via the unified statistical model of …
Snakemake-based workflow for detecting structural variants in genomic data