legaultmarc

gepyto

Python module providing reusable utility functions for human genomics.

forestplot

Small JS script to create forestplots

forward

Python package for phenomic genetic studies.

grstools

A bioinformatics framework for the construction and evaluation of genetic risk scores

cohort-manager

Utility to manage and explore collections of phenotype data.

ml-mr

UKBPheWAS

genepa-rs

AdversarialGMM

Minimax Estimation of Conditional Moment Models

bim_inner_join

cross_reference

Cross referencing for Google Docs

databundle

DeepFeatureIV

Code for "Learning Deep Features in Instrumental Variable Regression" (https://arxiv.org/abs/2010.07154)

fastglm

Fast glm fitting via RcppEigen

geneparse

Clean interface to parse genotype files

gwas_summary_statistics

Database system to hold GWAS summary statistics.

gym-minigrid

Minimalistic gridworld package for OpenAI Gym

gym-minigrid-ice

Adds icy tiles and an environment to gym-minigrid

hail

Scalable genomic data analysis.

magenpy

Modeling and Analysis of (Statistical) Genetics data in python

medical-reading-group

miami_generator

A python tool to create beautiful Miami plots

normality

Small stand-alone Python program to generate QQ plots from delimited text files. I use this to quickly evaluate the normality of continous variables.

ocypod

Ocypod is a Redis-backed service for orchestrating background jobs. Clients/workers can be written in any language, using HTTP/JSON to queue/fetch jobs, store results, etc.

prevalent-case-control

Incident + prevalent case control analysis

py-qvalue

Python implementation of the Q-value

pyplink

Python module to read binary Plink files.

pytorch-genotypes

rain

Interactive notebook of a solution to a simple Bayesian probability problem.

region-plot

A tool to plot significant regions of GWAS