neurogenomics/neurogenomics-lab-website

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neurogenomics/neurogenomics-lab-website

neurogenomics

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MAGMA_Celltyping

Find causal cell-types underlying complex trait genetics

rworkflows

Continuous integration for R packages. 🔀 Automates testing ✅, documentation website building 📦, & containerised deployment 🐳.

MungeSumstats

Rapid standardisation and quality control of GWAS or QTL summary statistics

orthogene

🧬 o r t h o g e n e 🧬✨✨✨✨✨✨✨ Interspecies gene mapping✨✨✨✨✨ 🦠 🔁 🌱 🔁 🌳 🔁 🍎 🔁 🍊 🔁 🪱 🔁 🪰 🔁 🐟 🔁 🦎 🔁 🐓 🔁 🦇 🔁 🐄 🔁 🐖 🔁 🐐 🔁 🐎 🔁 🐈 🔁 🐕 🔁 🐁 🔁 🐒 🔁 🦧 🔁 🦍 🔁 🏃‍♀️

reanalysis_Mathys_2019

A re-analysis of the [Single-cell transcriptomic analysis of Alzheimer’s disease](https://www.nature.com/articles/s41586-019-1195-2) using a standardised data processing and pseudobulk differential expression approach

EpiCompare

Comparison, benchmarking & QC of epigenetic datasets

scKirby

Automated ingestion and conversion of various single-cell data formats, within and across species

labwiki

Tips, intros, and documentation for the Neurogenomics Lab. 🧠 🧬

EnformerCelltyping

Enformer Celltyping is a tensorflow, multi-headed attention based model that incorporates distal effects of Deoxyribonucleic Acid (DNA) interactions to predict histone marks across diverse cell types.

Jupyter Notebook

Kayaking

templateR

Self-updating template for developing R packages.

TERRA_Tutorial

Guide to creating very simple WDL workflows and pushing them to TERRA via dockstore

rare_disease_celltyping

Code, data and results associated with the "Rare diseases cell-typing" project.

CHAS

Cell type-specific Histone Acetylation Score

MAGMA_Files_Public

Publicly shared SNP-to-gene mappings of GWAS generated by MAGMA.

scFlowExamples

HPOExplorer

Functions for working with the Human Phenotype Ontology data

NextFlowIntro

MotifPeeker

Benchmark Epigenomic Profiling Methods with Motif Enrichment as Key Metric

document_and_share

Strategies for documentation and sharing of data analyses.

MotifStats

Package for integrating peak and motif positions

rare_disease_celltyping_apps

All apps and homepage code in one place for the rare disease EWCE project.

RareDiseasePrioritisation

Prioritise cell-type-specific gene targets from the Rare Disease Celltyping project.

MSTExplorer

Multi-Scale Target Explorer systematically identifies, prioritises, and visualises cell-type-specific gene therapy targets across the phenome.

EpiPrepare

Preprocessing of epigenomic data from fastq files.

EWCE