There are 3 repositories under eqtl topic.
LocusCompareR is a R package with visualization tools for comparing two genetic association datasets.
Using real genotype data, simulate a complex trait as a function of latent expression, fit eQTL weights in independent data, and perform GWAS/TWAS on complex trait.
CellRegMap: A statistical framework for mapping context-specific regulatory variants using scRNA-seq
Population-scale single-cell RNA-seq profiling across dopaminergic neuron differentiation
Single-cell RNA-sequencing of differentiating iPS cells reveals dynamic genetic effects on gene expression
Software to perform multi-ancestry SNP fine-mapping on molecular data
Tejaas - a tool for discovering trans-eQTLs
Application of the Simple Sum method for testing co-localization of GWAS with any other SNP-level data (e.g. eQTL data)
R package for "Multi-tissue Transcriptome-Wide Association Studies (MTWAS)"
Computationally efficient and statistically powerful software for detecting context-specific eQTL effects in multi-context genomic studies.
Analysis of regulatory impacts of GWAS SNPs associated with psychiatric disorders and cognitive functioning.
Analysis of regulatory impacts of autism-associated SNPs on biological pathways in the fetal and adult cortex.
A workflow based on QTLtools to run cis- and trans-QTL analyses.
Some workflows I wrote for my phd projects
Analysis of tissue-specific regulatory impacts of alcohol dependence-associated SNPs.
A snakemake pipeline for QTL mapping. Based on the GTEX pipeline
A lightweight Julia package for eQTL genome scans near real-time.
fastQTL analysis of methylation and expression data
Scripts of Final Master Project
Association analysis of ADH and ALDH gene regulatory interactions with GWAS traits.
Hidden Markov Random Field Model - Inferring Gene-Disease Association by an Integrative Analysis of eQTL GWAS and Protein-Protein Interaction data
An Online Database of 3D Chromatin Structure
De novo discovery of traits co-occurring with chronic obstructive pulmonary disease.
Projects realized during Computational Genomics course.