A list of awesome tools for complex trait genetics.

Github Pages template based upon HTML and Markdown for personal, portfolio-based websites.

Code for creating cell-type-specific regulatory element annotation files

Covarying neighborhood analysis (CNA) is a method for finding structure in- and conducting association analysis with multi-sample single-cell datasets.

Genotype-Neighborhood Associations: A tool for identifying genetic variant associations to the abundance of cell states in single-cell datasets

Compositional Linear Algebra

Collection of analysis tools for quantitative trait loci

Generalized linear mixed-effect model in Python

Software to infer latent pleiotropic components from GWAS summary data

Score Test Based on Saddlepoint Approximation

Linear solvers in JAX and Equinox. https://docs.kidger.site/lineax

Fast inference for Generalised Linear Mixed Models.

Single-cell analysis in Python. Scales to >100M cells.

R package to estimate q-values and false discovery rate quantities.

Fast, flexible and easy to use probabilistic modelling in Python.

Modeling and Analysis of (Statistical) Genetics data in python

Elegant easy-to-use neural networks + scientific computing in JAX. https://docs.kidger.site/equinox/

Ultrafast GPU-enabled QTL mapper

LD Score Regression (LDSC)

Fit Gamma-Poisson Generalized Linear Models Reliably

Code Repository for Python Object-Oriented Programming - 4th edition, Published by Packt

Statsmodels: statistical modeling and econometrics in Python

Probabilistic reasoning and statistical analysis in TensorFlow