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abu-dhabi

Abu Dhabi population genetics and T2D/metformin RNAseq

ad_git

upload AD docs

althapalignr

analysis-with-docker

Slides discussing how to use Docker for data analyses.

atacseq_pipeline

enhancer-rna

eqtl-intro

An introductory course to eQTL analysis.

eqtl-plots

genotype-tools

Scripts to facilitate processing of genotyping data.

git-intro

A brief introduction to git and GitHub.

github_and_rmd_introduction

An introduction to using git and R markdown to document projects

heatshock

Analysis of the transcriptional response to heat shock in LCLs

htseq

High throughput / next generation sequencing pipeline

hussein_rnaseq

icecap

Fork of Gabriele's ICeCAP pipeline for reference in the jknightlab GitHub

impute-tools

Scripts to facilitate imputation of genotypes and subsequent QC.

influenza

latex-thesis

mepipe

Functions to support running of Matrix-eQTL analysis pipeline. This includes support for adding principle components as covariates and determining the optimal number of principal components to include.

mirna_pipeline

bioinformatics pipeline to analyze micro RNA sequencing data

neut-blueprint

Blueprint analysis of Neutrophil eQTL data

ont-methylation-pipeline

Codes used for analysing sequencing data and modified base information derived using ONT

rna-seq_course

sample-identity-check

sepstratifier

Stratification of infectious disease patients by gene expression profile

sepstratifier-paper_sci-trans-med_2022

This repository contains all the codes associated with the paper "An immune dysfunction score for stratification of patients with acute infection based on whole blood gene expression" by Cano-Gamez et al.

taps-pipeline

Codes for processing of methylation data generated using the TAPS method