hansiu

guidance

autojump

A cd command that learns - easily navigate directories from the command line

oesophago-gastric-cancer-risk-prediction-ml

Oesophago-gastric cancer risk prediction on EHR data - comparison of a range of ML techniques

talks_odt

Slides and materials for most of my talks by year

sklearn-one-day

One day workshop for machine learning with scikit-learn

breast-cancer-risk-prediction

Breast cancer risk prediction using genotyped data

xMLGenoRisk

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 developing prostate cancer with a linear Support Vector Machine (SVM).

PRScs

Polygenic prediction via continuous shrinkage priors

pgsc_calc

The Polygenic Score Catalog Calculator is a nextflow pipeline for polygenic score calculation

PUMAS

Fine-tuning polygenic risk score models using GWAS summary statistics

viprs-paper

Reproducible code for running the analyses in the paper "Fast and Accurate Bayesian Polygenic Risk Modeling with Variational Inference" (2022)

PRISM

PRISM: Polygenic RIsk Score Modeler

degas-risk

Polygenic risk modeling with latent trait-related genetic components

ukbiobank-resources

A curated list for preprocessing, cleaning, mapping and analyzing UK Biobank data.

pandasgwas

pandasGWAS: a Python package for easy retrieval of GWAS Catalog data

PascalX

ukbb_parser

A Python module for loading phenotypic and genetic data from the UK Biobank.

public-apis

A collective list of free APIs

ConsHMM

awesome-computational-social-science

A list of awesome resources for Computational Social Science

dna-seq-varlociraptor

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 Varlociraptor.

sv-callers

Snakemake-based workflow for detecting structural variants in genomic data

mapache

mapping pipeline for ancient DNA

bioicons

A library of free open source icons for science illustrations in biology and chemistry

Deedy-Resume

A one page , two asymmetric column resume template in XeTeX that caters to an undergraduate Computer Science student

Asymmetron

A tool to identify strand asymmetries in genomic data

damage_repair

Genome-wide DNA damage and excision repair maps

DeepMP

DeepMP is a computational tool to detect DNA modifications in Nanopore sequencing data

papers-we-love

Papers from the computer science community to read and discuss.

ultimate-python

Ultimate Python study guide for newcomers and professionals alike. :snake: :snake: :snake: