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adrd_brain_aging

ADRD Brain Aging projects

analysis_pipeline_wdl

Collection of WDL workflows based off the University of Washington TOPMed DCC Best Practices for GWAS. The WDL structure was based upon CWLs written by the Seven Bridges development team.

awesome-multi-omics

List of software packages for multi-omics analysis

bigsnpr

R package for the analysis of massive SNP arrays.

bimmer

blogdown

RBlogdown

causal-ml

Must-read papers and resources related to causal inference and machine (deep) learning

causalmed

Causal Mediation analysis

causalml

Uplift modeling and causal inference with machine learning algorithms

colochelpr

Helper/wrapper functions for executing coloc & associated analyses

crossplatform_mgwas

Cross-platform genetic discovery of small molecule products of metabolism and application to clinical outcomes Luca A. Lotta, Maik Pietzner, Isobel D. Stewart, Laura B.L. Wittemans, Chen Li, Roberto Bonelli, Johannes Raffler, Emma K. Biggs, Clare Oliver-Williams, Victoria P.W. Auyeung, Jian’an Luan, Eleanor Wheeler, Ellie Paige, Praveen Surendran,

d2l-zh

《动手学深度学习》：面向中文读者、能运行、可讨论。中英文版被60多个国家的400多所大学用于教学。

deep-learning-models

Keras code and weights files for popular deep learning models.

dowhy

DoWhy is a Python library for causal inference that supports explicit modeling and testing of causal assumptions. DoWhy is based on a unified language for causal inference, combining causal graphical models and potential outcomes frameworks.

easy_microbiome

Using R language in microbiome analysis

epic_olink_protein_prediction

This repository contains code to derive prediction models for a total of 28 outcomes in the EPIC-Norfolk cohort (Day et al. 1997) using plasma proteomic data obtained with the Olink Explore platform.

eqtl-catalogue-resources

eqtl_to_twas

Methods for converting eQTL summary statistics into TWAS SNP-weights

forestploter

Draw forestplot in R

formatbook

A collection of commonly used format for quick lookup.

gagnonmr

gcluster

genesis

GENetic EStimation and Inference in Structured samples (GENESIS): Statistical methods for analyzing genetic data from samples with population structure and/or relatedness

genomics-research

genomicsem

R-package for structural equation modeling based on GWAS summary data

genopred

Genotype-based Prediction (GenoPred)

ggcirclize-manual

ggclusternet

Microbial ecological network visualization clustering

gh-repo-clone-yiluheihei-ml-youtube-courses

grapple

An R package for Mendelian Randomization